Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 33 of 120
Found at i:8550026 original size:34 final size:32
Alignment explanation
Indices: 8549979--8550045 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 32
8549969 GTATTGAAAA
*
8549979 TATTCAATATTAATATTTTAATAATAAATATT
1 TATTCAATATTAATATATTAATAATAAATATT
8550011 TATTACAATTATTAATATATTAATAATAAATATT
1 TATT-CAA-TATTAATATATTAATAATAAATATT
8550045 T
1 T
8550046 TATAGTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.12
33 3 0.09
34 25 0.78
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTCAATATTAATATATTAATAATAAATATT
Found at i:8554764 original size:6 final size:6
Alignment explanation
Indices: 8554753--8554791 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
8554743 CGATCAAAAT
* *
8554753 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
8554792 TATGAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:8555788 original size:46 final size:46
Alignment explanation
Indices: 8555719--8555807 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
8555709 AAAAGGTCCG
* *
8555719 ATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACGGATCCA
1 ATGACTCTGTGTCATCGTAAGTTATATGAATCATATCACGGATCCA
* * *
8555765 ATGACTTTGTGTCATTGTAAGTTATATGAATCATATTACGGAT
1 ATGACTCTGTGTCATCGTAAGTTATATGAATCATATCACGGAT
8555808 TAAAGGTCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (46 bp):
ATGACTCTGTGTCATCGTAAGTTATATGAATCATATCACGGATCCA
Found at i:8555936 original size:53 final size:53
Alignment explanation
Indices: 8555765--8555948 Score: 244
Period size: 53 Copynumber: 3.5 Consensus size: 53
8555755 CACGGATCCA
* * * *
8555765 ATGACTTTGTGTCATTGTAAGTTATATGAATCATATTACGGATTAAAGGTCTG
1 ATGACTCTGTGTCATCGTGAGTTATATGAATCATATTACGGATTAAAGGTCCG
* * * *
8555818 ATAACTCTATGTCATCGTGAGTTATATGAATCTTATTATGGATTAAAGGTCCG
1 ATGACTCTGTGTCATCGTGAGTTATATGAATCATATTACGGATTAAAGGTCCG
* *
8555871 ATGACTCTGTGTCATCGTGAGTTATACGAATCCTATTACGGATTAAAGGTCCG
1 ATGACTCTGTGTCATCGTGAGTTATATGAATCATATTACGGATTAAAGGTCCG
* *
8555924 AGGACT-TGGTGTCATTGTGAGTTAT
1 ATGACTCT-GTGTCATCGTGAGTTAT
8555949 CAAATGTGAA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 114 0.99
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (53 bp):
ATGACTCTGTGTCATCGTGAGTTATATGAATCATATTACGGATTAAAGGTCCG
Found at i:8555937 original size:106 final size:99
Alignment explanation
Indices: 8555710--8555948 Score: 273
Period size: 106 Copynumber: 2.3 Consensus size: 99
8555700 AAATGCAAAA
*
8555710 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACGGATCCAATGACTTTGT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACGGATCCAATGACTCTGT
* *
8555775 GTCATTGTAAGTTATATGAATCATATTACGGATT
66 GTCATCGTAAGTTATACGAATCATATTACGGATT
* * * * * * *
8555809 AAAGGTCTGATAACTCTATGTCATCGTGAGTTATATGAATCTTATTATGGATTAAAGGTCCGATG
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACGG-----A--TCCAATG
* *
8555874 ACTCTGTGTCATCGTGAGTTATACGAATCCTATTACGGATT
59 ACTCTGTGTCATCGTAAGTTATACGAATCATATTACGGATT
* *
8555915 AAAGGTCCGAGGACT-TGGTGTCATTGTGAGTTAT
1 AAAGGTCCGATGACTCT-GTGTCATCGTGAGTTAT
8555949 CAAATGTGAA
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
99 44 0.38
104 1 0.01
105 1 0.01
106 69 0.60
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (99 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACGGATCCAATGACTCTGT
GTCATCGTAAGTTATACGAATCATATTACGGATT
Found at i:8559645 original size:16 final size:17
Alignment explanation
Indices: 8559617--8559666 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
8559607 TCAATAAAGA
*
8559617 ATATTTTCA-ATTAATT
1 ATATTTTAATATTAATT
8559633 ATATTTT-ATATT-ATT
1 ATATTTTAATATTAATT
8559648 -TATTTTAATATTATATT
1 ATATTTTAATATTA-ATT
8559665 AT
1 AT
8559667 CATATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 9 0.31
16 10 0.34
17 3 0.10
18 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTAATATTAATT
Found at i:8559660 original size:15 final size:15
Alignment explanation
Indices: 8559634--8559666 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8559624 CAATTAATTA
8559634 TATTTTATATTAT-T
1 TATTTTATATTATAT
8559648 TATTTTAATATTATAT
1 TATTTT-ATATTATAT
8559664 TAT
1 TAT
8559667 CATATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 7 0.41
16 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:8559723 original size:19 final size:19
Alignment explanation
Indices: 8559699--8559748 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
8559689 ATTTTATTTT
8559699 TGTTTAAAATAAGATAAAA
1 TGTTTAAAATAAGATAAAA
8559718 TGTTTAAAAATTAAAGATAAAA
1 TGTTT-AAAA-T-AAGATAAAA
8559740 --TTTAAAATA
1 TGTTTAAAATA
8559749 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 9 0.32
20 7 0.25
21 1 0.04
22 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TGTTTAAAATAAGATAAAA
Found at i:8562347 original size:2 final size:2
Alignment explanation
Indices: 8562340--8562366 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8562330 CCAACAGATT
8562340 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8562367 TATGTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8564371 original size:26 final size:26
Alignment explanation
Indices: 8564322--8564371 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8564312 ATGTAAGAGA
*
8564322 AAAAATTATATAAAAAATATGCTTAT
1 AAAAATTATATAAAAAATAAGCTTAT
*
8564348 AAAAATTA-ATATAAAATTAAGCTT
1 AAAAATTATATA-AAAAATAAGCTT
8564372 TGTTGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAAATTATATAAAAAATAAGCTTAT
Found at i:8564974 original size:16 final size:14
Alignment explanation
Indices: 8564946--8565005 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
8564936 AGATGAAGAG
*
8564946 AATAAAAATAAATA
1 AATAAAAAAAAATA
8564960 AATACAAAAAGAAATA
1 AATA-AAAAA-AAATA
*
8564976 AATAAAGAAAAATA
1 AATAAAAAAAAATA
* *
8564990 AA-CAAACAAAATA
1 AATAAAAAAAAATA
8565003 AAT
1 AAT
8565006 CGATAAACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 10 0.26
14 11 0.29
15 8 0.21
16 9 0.24
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (14 bp):
AATAAAAAAAAATA
Found at i:8569086 original size:20 final size:20
Alignment explanation
Indices: 8569063--8569133 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
8569053 AACAAATGAT
8569063 TTTAAAATTATTAAAATTAA
1 TTTAAAATTATTAAAATTAA
**
8569083 TTTAAAATTATT--TTTTAGAA
1 TTTAAAATTATTAAAATT--AA
** *
8569103 AATAAAATTATTAAAATTAT
1 TTTAAAATTATTAAAATTAA
8569123 TTTAAAATTAT
1 TTTAAAATTAT
8569134 AATCATCATC
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
18 2 0.05
20 34 0.89
22 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
TTTAAAATTATTAAAATTAA
Found at i:8569129 original size:11 final size:11
Alignment explanation
Indices: 8569056--8569133 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 11
8569046 CCACATCAAC
*
8569056 AAATGATTTTA
1 AAATTATTTTA
8569067 AAATTA--TTA
1 AAATTATTTTA
*
8569076 AAATTAATTTA
1 AAATTATTTTA
8569087 AAATTATTTTTTAGA
1 AAATTA--TTTT--A
*
8569102 AAATAAAATTATTA
1 AAAT--TATT-TTA
8569116 AAATTATTTTA
1 AAATTATTTTA
8569127 AAATTAT
1 AAATTAT
8569134 AATCATCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
9 9 0.17
11 24 0.44
12 3 0.06
13 3 0.06
14 5 0.09
15 7 0.13
16 2 0.04
17 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:8572069 original size:158 final size:158
Alignment explanation
Indices: 8571920--8572611 Score: 1089
Period size: 158 Copynumber: 4.4 Consensus size: 158
8571910 CTTTGCCAAA
* * * * * * * *
8571920 ACTCGAAACGAAGACCTTTAGTGTGTTAGGCTAACGTCATAACCAACTGCAACACGAAACCCCAT
1 ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
8571985 TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
66 TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
8572050 AAATATTTTTACCATTGGCTTCGCCCGG
131 AAATATTTTTACCATTGGCTTCGCCCGG
*
8572078 ACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
1 ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
** ** *
8572143 TGTGTGACTTTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAAATAA
66 TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
* *
8572208 AGACA-TTTTACCATTGGCTTCGCCCGG
131 AAATATTTTTACCATTGGCTTCGCCCGG
*
8572235 ACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
1 ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
* *
8572300 TGTAAGAAATTACATGTATAATATTATTCATTTTTACTCTAAAAAGTAAGAAATGCAGAAACTAA
66 TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
8572365 AAATATTTTTACCATTGGCTTCGCCCGG
131 AAATATTTTTACCATTGGCTTCGCCCGG
* * *
8572393 ACTCGAACCAGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACCACACCACGAAACCACAT
1 ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
* *
8572458 TGTAAGACATAACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
66 TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
* * *
8572523 AACTATTTCTACCATTGGCTTCGCCCGA
131 AAATATTTTTACCATTGGCTTCGCCCGG
* * * * *
8572551 ATTCGAAGCGGAGACCTTCAGTGGGTTAGACTGACGTGATAACCAATTACACCACAAAACC
1 ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACC
8572612 CCGTTTGCAA
Statistics
Matches: 492, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
157 148 0.30
158 344 0.70
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (158 bp):
ACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACAT
TGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTAA
AAATATTTTTACCATTGGCTTCGCCCGG
Found at i:8572330 original size:315 final size:316
Alignment explanation
Indices: 8571919--8572611 Score: 1147
Period size: 315 Copynumber: 2.2 Consensus size: 316
8571909 GCTTTGCCAA
* * * * * * * *
8571919 AACTCGAAACGAAGACCTTTAGTGTGTTAGGCTAACGTCATAACCAACTGCAACACGAAACCCCA
1 AACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACA
*
8571984 TTGTAAGAAATTACATTTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTA
66 TTGTAAGAAATTACATGTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTA
*
8572049 AAAATATTTTTACCATTGGCTTCGCCCGGACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACG
131 AAAATATTTTTACCATTGGCTTCGCCCGGACTCGAACCAGAGACCTTCAGTGTGTTAGACTGACG
* ** * *
8572114 TGATAACCAACTACACCACGAAACCACATTGTGTGACTTTACATTTATAATATTATTCATTTTTA
196 TGATAACCAACCACACCACGAAACCACATTGTAAGACATAACATTTATAATATTATTCATTTTTA
8572179 ATCTAAAAAGTAAGAAATGCAGAAAATAAAGAC-ATTT-TACCATTGGCTTCGCCCG
261 ATCTAAAAAGTAAGAAATGCAGAAAATAAA-ACTATTTCTACCATTGGCTTCGCCCG
* *
8572234 GACTCGAACCGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACA
1 AACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACA
*
8572299 TTGTAAGAAATTACATGTATAATATTATTCATTTTTACTCTAAAAAGTAAGAAATGCAGAAACTA
66 TTGTAAGAAATTACATGTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTA
8572364 AAAATATTTTTACCATTGGCTTCGCCCGGACTCGAACCAGAGACCTTCAGTGTGTTAGACTGACG
131 AAAATATTTTTACCATTGGCTTCGCCCGGACTCGAACCAGAGACCTTCAGTGTGTTAGACTGACG
8572429 TGATAACCAACCACACCACGAAACCACATTGTAAGACATAACATTTATAATATTATTCATTTTTA
196 TGATAACCAACCACACCACGAAACCACATTGTAAGACATAACATTTATAATATTATTCATTTTTA
*
8572494 ATCTAAAAAGTAAGAAATGCAGAAACTAAAACTATTTCTACCATTGGCTTCGCCCG
261 ATCTAAAAAGTAAGAAATGCAGAAAATAAAACTATTTCTACCATTGGCTTCGCCCG
* * * * *
8572550 AATTCGAAGCGGAGACCTTCAGTGGGTTAGACTGACGTGATAACCAATTACACCACAAAACC
1 AACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACC
8572612 CCGTTTGCAA
Statistics
Matches: 351, Mismatches: 25, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
314 2 0.01
315 275 0.78
316 74 0.21
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (316 bp):
AACTCGAAACGGAGACCTTCAGTGTGTTAGACTGACGTGATAACCAACTACACCACGAAACCACA
TTGTAAGAAATTACATGTATAATATTATTCATTTTTAATCTAAAAAGTAAGAAATGCAGAAACTA
AAAATATTTTTACCATTGGCTTCGCCCGGACTCGAACCAGAGACCTTCAGTGTGTTAGACTGACG
TGATAACCAACCACACCACGAAACCACATTGTAAGACATAACATTTATAATATTATTCATTTTTA
ATCTAAAAAGTAAGAAATGCAGAAAATAAAACTATTTCTACCATTGGCTTCGCCCG
Found at i:8585392 original size:16 final size:17
Alignment explanation
Indices: 8585364--8585414 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
8585354 TTTTTAAATG
8585364 ATAAAA-TTT-TAATTT
1 ATAAAATTTTATAATTT
*
8585379 A-AATATTTTATAATTT
1 ATAAAATTTTATAATTT
*
8585395 ATAAAATTTTA-AATTA
1 ATAAAATTTTATAATTT
8585411 ATAA
1 ATAA
8585415 TGATAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 15 0.50
17 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAAAATTTTATAATTT
Found at i:8585463 original size:31 final size:30
Alignment explanation
Indices: 8585408--8585476 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
8585398 AAATTTTAAA
* * *
8585408 TTAATAATGATAAAATTATAATTTAATTTTT
1 TTAAAAATAATAAAAATATAATTTAA-TTTT
*
8585439 TTAAAAATAATAAAAATATGATTTAATTTT
1 TTAAAAATAATAAAAATATAATTTAATTTT
*
8585469 ATAAAAAT
1 TTAAAAAT
8585477 TTTAAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
TTAAAAATAATAAAAATATAATTTAATTTT
Found at i:8585476 original size:30 final size:31
Alignment explanation
Indices: 8585417--8585476 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
8585407 ATTAATAATG
* *
8585417 ATAAAATTATAATTTAATTTTTTTAAAAATA
1 ATAAAAATATAATTTAATTTTTATAAAAATA
*
8585448 ATAAAAATATGATTTAA-TTTTATAAAAAT
1 ATAAAAATATAATTTAATTTTTATAAAAAT
8585477 TTTAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
ATAAAAATATAATTTAATTTTTATAAAAATA
Found at i:8585497 original size:16 final size:16
Alignment explanation
Indices: 8585468--8585509 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
8585458 GATTTAATTT
*
8585468 TATAAAAATT-TTAAA
1 TATATAAATTATTAAA
8585483 TATATAAATTATTAAA
1 TATATAAATTATTAAA
8585499 -ATAATAAATTA
1 TAT-ATAAATTA
8585510 CATCATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATAAATTATTAAA
Found at i:8588936 original size:21 final size:21
Alignment explanation
Indices: 8588898--8588939 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8588888 CCTGTAACTT
* *
8588898 CTACCGATATATGCATACAAA
1 CTACCGATACATGAATACAAA
*
8588919 CTACCGATACATTAATACAAA
1 CTACCGATACATGAATACAAA
8588940 TAACTAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (21 bp):
CTACCGATACATGAATACAAA
Found at i:8593937 original size:59 final size:58
Alignment explanation
Indices: 8593874--8594029 Score: 192
Period size: 58 Copynumber: 2.7 Consensus size: 58
8593864 TTGATATCTA
* *
8593874 AACTTGATAATTTTTTTTAATTTGGTATCTAAACTTTTTTT-GA-CCTAATTTAGTACTTG
1 AACTTGATAATTTTTTCTAATTTGGTATCT-AA-TTTTTTTGGATCC-AATTTAGTACCTG
* * *
8593933 AACTTGACACTTTTTTCTAATTTGGTGTCTAATTTTTTTGGATCCAATTTAGTACCTG
1 AACTTGATAATTTTTTCTAATTTGGTATCTAATTTTTTTGGATCCAATTTAGTACCTG
* *
8593991 AACTTGGT-ATTTTTTACTAATTTGGTACCTAATTTTTTT
1 AACTTGATAATTTTTT-CTAATTTGGTATCTAATTTTTTT
8594030 AGATTTAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
57 13 0.15
58 43 0.51
59 28 0.33
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (58 bp):
AACTTGATAATTTTTTCTAATTTGGTATCTAATTTTTTTGGATCCAATTTAGTACCTG
Found at i:8594343 original size:91 final size:91
Alignment explanation
Indices: 8594196--8594390 Score: 218
Period size: 91 Copynumber: 2.1 Consensus size: 91
8594186 AAAAAAAAAA
* * *
8594196 TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAAGAACCAAATTGGATCC-CAAAAAGTTTAAG
1 TTAGGTACCAAATTAGGAAAAAGAATCAAGTTCAAGAACCAAATTAGATCCAAAAAAAGTTTAAG
* *
8594260 TATCAATTTTA-AAAAAAAGTGTCAAGT
66 TACCAA-ATTAGAAAAAAA-TGTCAAGT
* ** *
8594287 TTAGGTATCAAATTAGGAAAAA-ATATCAAGTTTGAGTACCAAATTAGA-CCAAAAAAAAGTTTA
1 TTAGGTACCAAATTAGGAAAAAGA-ATCAAGTTCAAGAACCAAATTAGATCC-AAAAAAAGTTTA
*
8594350 AGTACCAAATTAGGAAAAAATGTCAAGT
64 AGTACCAAATTAGAAAAAAATGTCAAGT
* *
8594378 TCAAGTACCAAAT
1 TTAGGTACCAAAT
8594391 GTTATATTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
90 3 0.03
91 61 0.70
92 23 0.26
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (91 bp):
TTAGGTACCAAATTAGGAAAAAGAATCAAGTTCAAGAACCAAATTAGATCCAAAAAAAGTTTAAG
TACCAAATTAGAAAAAAATGTCAAGT
Found at i:8594369 original size:29 final size:31
Alignment explanation
Indices: 8594283--8594390 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
8594273 AAAAAGTGTC
* * *
8594283 AAGTTTAGGTATCAAATTAGGAAAAAATATC
1 AAGTTTAAGTACCAAATTAGGAAAAAATATA
* *
8594314 AAGTTTGAGTACCAAATTA-GACCAAAA-A-A
1 AAGTTTAAGTACCAAATTAGGA-AAAAATATA
* *
8594343 AAGTTTAAGTACCAAATTAGGAAAAAATGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAATATA
*
8594374 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
8594391 GTTATATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 22 0.35
30 5 0.08
31 36 0.57
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGGAAAAAATATA
Found at i:8597029 original size:3 final size:3
Alignment explanation
Indices: 8597021--8597054 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8597011 AATATTTGTG
8597021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8597055 TAAGCCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8597724 original size:25 final size:26
Alignment explanation
Indices: 8597685--8597739 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
8597675 ATTAAAGTAA
* *
8597685 ATTTTCAATTATTTTTTATAATTAAT
1 ATTTTCAATAATTTTTCATAATTAAT
* *
8597711 ATTTT-AATAATTTTTCATATTTTAT
1 ATTTTCAATAATTTTTCATAATTAAT
8597736 ATTT
1 ATTT
8597740 CATTCATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTTCAATAATTTTTCATAATTAAT
Found at i:8598102 original size:20 final size:20
Alignment explanation
Indices: 8598077--8598121 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
8598067 AATTTGATTA
8598077 AAGGGGTAGCCCTTGTGGAT
1 AAGGGGTAGCCCTTGTGGAT
8598097 AAGGGGTAGCCCTTGTGGAT
1 AAGGGGTAGCCCTTGTGGAT
8598117 AAGGG
1 AAGGG
8598122 ATATCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.13, G:0.42, T:0.22
Consensus pattern (20 bp):
AAGGGGTAGCCCTTGTGGAT
Found at i:8598310 original size:34 final size:35
Alignment explanation
Indices: 8598246--8598315 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
8598236 TTTTTGTGTT
8598246 ATTTTGGGATTTTTAAAAAAAATTAAGGTATTATCG
1 ATTTTGGGATTTTT-AAAAAAATTAAGGTATTATCG
** *
8598282 ATTTTGGGATTTTT-TTAAAATTAGGGTATTATCG
1 ATTTTGGGATTTTTAAAAAAATTAAGGTATTATCG
8598316 TTAAAATAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 17 0.55
36 14 0.45
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (35 bp):
ATTTTGGGATTTTTAAAAAAATTAAGGTATTATCG
Found at i:8600017 original size:23 final size:23
Alignment explanation
Indices: 8599973--8600056 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
8599963 TTAATGTCCA
**
8599973 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
*
8599996 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
* *
8600019 CGAACATGTTGATGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
*
8600043 TGAACATGTTCACG
1 CGAACATGTTCACG
8600057 GACAATGCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.66
24 14 0.28
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:8600365 original size:2 final size:2
Alignment explanation
Indices: 8600358--8600382 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8600348 TTTACACCCC
8600358 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8600383 GAAAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8602777 original size:30 final size:29
Alignment explanation
Indices: 8602714--8602808 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
8602704 AGATTAACAT
* * *
8602714 CACACAAAAAACATGTAACACAGG-CAAAAA
1 CACACAACAAATATGTAGCAC-GGAC-AAAA
*
8602744 CACATAACAAATATGTAGCACGGACAAAGA
1 CACACAACAAATATGTAGCACGGACAAA-A
* *
8602774 CACACATCAAATATGTAGGACGGACAGAAA
1 CACACAACAAATATGTAGCACGGACA-AAA
8602804 CACAC
1 CACAC
8602809 CTTAAGCGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 5 0.09
30 48 0.87
31 2 0.04
ACGTcount: A:0.52, C:0.23, G:0.15, T:0.11
Consensus pattern (29 bp):
CACACAACAAATATGTAGCACGGACAAAA
Found at i:8603052 original size:44 final size:44
Alignment explanation
Indices: 8602989--8603076 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
8602979 TGGAACTTAT
8602989 GCAGGGACAATATGCACAGGTGGAAGAGGAGGTAACTCGTCGAC
1 GCAGGGACAATATGCACAGGTGGAAGAGGAGGTAACTCGTCGAC
*
8603033 GCAGGGACAATCTGCACAGGTGGAAGAGGAGGTAACTCGTCGAC
1 GCAGGGACAATATGCACAGGTGGAAGAGGAGGTAACTCGTCGAC
8603077 CTTAGAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.36, T:0.14
Consensus pattern (44 bp):
GCAGGGACAATATGCACAGGTGGAAGAGGAGGTAACTCGTCGAC
Found at i:8603326 original size:30 final size:29
Alignment explanation
Indices: 8603290--8603385 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 29
8603280 CAAGGTCAAT
8603290 GGTCAACGGTTCGATCAATGAGTCGGGTTG
1 GGTCAACGGTTCGATCAA-GAGTCGGGTTG
* * *
8603320 GGTCAACGGTTCGATTAAAGGGTTGGGTTG
1 GGTCAACGGTTCGA-TCAAGAGTCGGGTTG
*
8603350 GGTCAACGGTTCGGTCGACAGA-TCGGGTTG
1 GGTCAACGGTTCGATC-A-AGAGTCGGGTTG
8603380 GGTCAA
1 GGTCAA
8603386 TAGTTCGGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.02
30 50 0.89
31 5 0.09
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.26
Consensus pattern (29 bp):
GGTCAACGGTTCGATCAAGAGTCGGGTTG
Found at i:8610316 original size:21 final size:21
Alignment explanation
Indices: 8610292--8610339 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
8610282 CCTGATGTGT
8610292 GAACACTTTTAGATGTTGTAC
1 GAACACTTTTAGATGTTGTAC
* *
8610313 GAACACTTTTGGATGTTGTGC
1 GAACACTTTTAGATGTTGTAC
8610334 GAACAC
1 GAACAC
8610340 CTTCACATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (21 bp):
GAACACTTTTAGATGTTGTAC
Found at i:8611215 original size:28 final size:29
Alignment explanation
Indices: 8611162--8611216 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
8611152 TAGATTGAGT
*
8611162 TGATTATATGTGAATTATTGTATGCGAAC
1 TGATTATATGTGAATTATTATATGCGAAC
* *
8611191 TGATTAT-TGTGAATTGTTATCTGCGA
1 TGATTATATGTGAATTATTATATGCGA
8611217 TTTGTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (29 bp):
TGATTATATGTGAATTATTATATGCGAAC
Found at i:8616079 original size:53 final size:53
Alignment explanation
Indices: 8615968--8616212 Score: 357
Period size: 53 Copynumber: 4.6 Consensus size: 53
8615958 TTCACGTTTG
* * *
8615968 ATAACTCACGATGACATAAAGTCATCGGACCCTTTAATCCATAATAGGATTCAC
1 ATAACTCACGATGACACAGAGTCATCGGA-CCTTTAATCCATAATAGGATTCAT
*
8616022 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAT
* **
8616075 ATAACTCATGATGACACAGAGTCATCAAACCTTTAATCCATAATAGGATTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAT
* * *
8616128 ATAACTCACGATAACACAGAGTCATCGAACCTTTAATCCGTAATAAGG-TTCAT
1 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATAAT-AGGATTCAT
* *
8616181 ATAACTCACGATGACACAAAGTCATCAGACCT
1 ATAACTCACGATGACACAGAGTCATCGGACCT
8616213 GCATTTACGG
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
53 144 0.83
54 30 0.17
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATAATAGGATTCAT
Found at i:8629289 original size:6 final size:6
Alignment explanation
Indices: 8629278--8629340 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
8629268 GGCAACCCAA
*
8629278 TTTTAT TTTTA- -TTTA- TTTTAT TTTTAT TTTTAT TTTT-T ATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
8629322 TTTCTAT ATTTTAAT TTTT
1 TTT-TAT -TTTT-AT TTTT
8629341 TTTATCATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.08
5 8 0.16
6 24 0.49
7 8 0.16
8 5 0.10
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:8629303 original size:11 final size:11
Alignment explanation
Indices: 8629277--8629324 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
8629267 AGGCAACCCA
8629277 ATTTTATTTTT
1 ATTTTATTTTT
8629288 A-TTTA-TTTT
1 ATTTTATTTTT
8629297 ATTTTTATTTTT
1 A-TTTTATTTTT
8629309 ATTTT-TTATTT
1 ATTTTATT-TTT
8629320 ATTTT
1 ATTTT
8629325 CTATATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 17 0.52
12 5 0.15
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:8629321 original size:32 final size:32
Alignment explanation
Indices: 8629277--8629340 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
8629267 AGGCAACCCA
* *
8629277 ATTTTATTTTTATTTAT-TTTATTTTTATTTTT
1 ATTTTATTTTTATTT-TCTATATTTTAATTTTT
8629309 ATTTT-TTATTTATTTTCTATATTTTAATTTTT
1 ATTTTATT-TTTATTTTCTATATTTTAATTTTT
8629341 TTTATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 25 0.89
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (32 bp):
ATTTTATTTTTATTTTCTATATTTTAATTTTT
Found at i:8629333 original size:18 final size:17
Alignment explanation
Indices: 8629279--8629353 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 17
8629269 GCAACCCAAT
8629279 TTTATTTTTATTTATTTTA
1 TTTATTTTTA--TATTTTA
*
8629298 TTTTTATTTTTATTTTTTA
1 --TTTATTTTTATATTTTA
8629317 TTTATTTTCTATATTTTAA
1 TTTATTTT-TATATTTT-A
8629336 TTT-TTTTTATCATTTTA
1 TTTATTTTTAT-ATTTTA
8629353 T
1 T
8629354 GTCCAGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
17 13 0.27
18 16 0.33
19 10 0.20
21 10 0.20
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATATTTTA
Found at i:8629341 original size:28 final size:26
Alignment explanation
Indices: 8629277--8629345 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 26
8629267 AGGCAACCCA
8629277 ATTTTATTTTTATTTATTTTATTTTTAT
1 ATTTTATTTTT-TTTA-TTTATTTTTAT
8629305 -TTTTA--TTTTTTATTTATTTTCTAT
1 ATTTTATTTTTTTTATTTATTTT-TAT
8629329 ATTTTAATTTTTTTTAT
1 ATTTT-ATTTTTTTTAT
8629346 CATTTTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
23 8 0.22
24 7 0.19
25 7 0.19
26 1 0.03
27 5 0.14
28 8 0.22
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.78
Consensus pattern (26 bp):
ATTTTATTTTTTTTATTTATTTTTAT
Found at i:8631686 original size:22 final size:22
Alignment explanation
Indices: 8631635--8631736 Score: 141
Period size: 22 Copynumber: 4.5 Consensus size: 22
8631625 GCTGGGGAAA
*
8631635 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
8631657 CCAGTAGGCACACACAATGCAAT
1 -CAGTAGGCACACACAGTGCAAT
8631680 CAGTAGGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
* * *
8631702 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
8631725 CAGTAGGCACAC
1 CAGTAGGCACAC
8631737 GAGGTGTGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
22 37 0.52
23 34 0.48
ACGTcount: A:0.37, C:0.28, G:0.22, T:0.13
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:8631692 original size:45 final size:45
Alignment explanation
Indices: 8631635--8631736 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
8631625 GCTGGGGAAA
* *
8631635 CAGTAAGCACACACAGTGCAATCCAGTAGGCACACACAATGC-AAT
1 CAGTAGGCACACACAGTGCAAT-CAGTAGGCACACACAACGCAAAT
* * *
8631680 CAGTAGGCACACACAGTGCAATCAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGCAATCAGTAGGCACACACAACGCAAAT
8631725 CAGTAGGCACAC
1 CAGTAGGCACAC
8631737 GAGGTGTGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 15 0.29
45 36 0.71
ACGTcount: A:0.37, C:0.28, G:0.22, T:0.13
Consensus pattern (45 bp):
CAGTAGGCACACACAGTGCAATCAGTAGGCACACACAACGCAAAT
Found at i:8631751 original size:23 final size:23
Alignment explanation
Indices: 8631725--8631778 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
8631715 TAGCGCAAAT
* * *
8631725 CAGTAGGCACACGAGGTGTGAAA
1 CAGTAAGCACACGAAGTGTAAAA
8631748 CAGTAAGCACACGAAGTGTAAAA
1 CAGTAAGCACACGAAGTGTAAAA
*
8631771 TAGTAAGC
1 CAGTAAGC
8631779 GCGCTAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.15
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGTAAAA
Found at i:8633813 original size:25 final size:23
Alignment explanation
Indices: 8633770--8633815 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8633760 CCAACTAGGA
8633770 AATTATTGTTTAGATTTAATTCT
1 AATTATTGTTTAGATTTAATTCT
*
8633793 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
8633816 TAGATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCT
Found at i:8641014 original size:14 final size:14
Alignment explanation
Indices: 8640990--8641023 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8640980 TAATCCTATC
8640990 AATTT-ATATATTT
1 AATTTCATATATTT
8641003 AATTTCATATATTT
1 AATTTCATATATTT
*
8641017 ACTTTCA
1 AATTTCA
8641024 GGTGAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTCATATATTT
Found at i:8642602 original size:45 final size:45
Alignment explanation
Indices: 8642553--8642727 Score: 269
Period size: 45 Copynumber: 3.9 Consensus size: 45
8642543 ATCATGTGTG
* * * * **
8642553 TCGTATAGTATAATTAATCGAATAATATTTATCATATCACACATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATA
*
8642598 TCGTATAACATAATCAATCAAATAATATTTACCATATCATGCATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATA
8642643 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATA
* *
8642688 TCGTATAGCATACTTAATCAAATAATATTTACCATATCAT
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCAT
8642728 AATTAATAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 120 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (45 bp):
TCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATA
Found at i:8642728 original size:29 final size:29
Alignment explanation
Indices: 8642696--8642756 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
8642686 TATCGTATAG
* * *
8642696 CATACTTAATCAAATAATATTTACCATAT
1 CATAATTAATAAAATAATATTTACCACAT
*
8642725 CATAATTAATAAAATAGTATTTACCACAT
1 CATAATTAATAAAATAATATTTACCACAT
8642754 CAT
1 CAT
8642757 GCATATCGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (29 bp):
CATAATTAATAAAATAATATTTACCACAT
Found at i:8642772 original size:74 final size:74
Alignment explanation
Indices: 8642651--8642892 Score: 250
Period size: 74 Copynumber: 3.1 Consensus size: 74
8642641 TATCGTATAG
* * * *
8642651 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATACTTAATCAAATAATAT
1 CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
8642716 TTACCATAT
66 TTACCATAT
* *
8642725 CATAATTAATAAAATAGTATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
8642790 TTACCATATCAT
66 TTACC--AT-AT
* ** *
8642802 ACATATCGTATAACATAATCAATCAAATAATATTTATCATGTCATGCATATCATATAGCATAATC
1 -CATA----AT--C--AAT--A--AAATAATATTTACCACATCATGCATATCGTATAGCATAATC
8642867 AATCAAATAATATTTACCATAT
53 AATCAAATAATATTTACCATAT
8642889 CATA
1 CATA
8642893 CATATTGTAT
Statistics
Matches: 140, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
74 64 0.46
76 2 0.01
77 2 0.01
78 4 0.03
82 2 0.01
86 7 0.05
87 2 0.01
88 3 0.02
90 54 0.39
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (74 bp):
CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
TTACCATAT
Found at i:8642791 original size:45 final size:45
Alignment explanation
Indices: 8642725--8643556 Score: 1029
Period size: 45 Copynumber: 18.9 Consensus size: 45
8642715 TTTACCATAT
* * * *
8642725 CATAATTAATAAAATAGTATTTACCACATCATGCATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8642770 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * *
8642815 CATAATCAATCAAATAATATTTATCATGTCATGCATATCATATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8642860 CATAATCAATCAAATAATATTTACCATATCATACATATTGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * * *
8642905 CATAATCAATCAAATAATATTTATCATGTCATACTTATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * *
8642950 CATAATCAATCAGATAAT-TTCACCATATCATGCATATCGTATAA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8642994 CATAATCAATCCAATAATATTTACCATATCATACATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643039 CATAATCAATAAAATAATATTTACCATGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643084 CATAATCAATCAAATAAT-TTTACCATATCATGCATATAGTATAA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * * *
8643128 CATAATCAATCCAATAATATTTATCATATCATACATATCGGATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643173 CATAATCAATAAAATAATATTTACCATGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * *
8643218 CATAATCAATCAAATAAT-TTTACAATATCATGCATATCGTACAA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643262 CATAATCAATCAAATAATATTTACCTTGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* ** ** *
8643307 CATAATCAATCAAATAATATTTATCATATCATAAATATCACATAA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643352 CATAGTCAATCAAATAATATTTACCATGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * * * *
8643397 AATACTTAAACAAATAATATTTACCATATCATGCATACCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* *
8643442 CATACTCAATC--A-AATA---A-CAT-TTAT-CATATCGTATAG
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* ** *
8643478 CATAATTAATCAAATAATATTTTTCATGTCATGCATA-CG--TA-
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
*
8643519 -AT--T-AATCAAATAATATTTACCATTTCATGCATATCGTA
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTA
8643557 AAGAATACTT
Statistics
Matches: 676, Mismatches: 96, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
36 20 0.03
37 30 0.04
38 7 0.01
39 5 0.01
40 2 0.00
42 6 0.01
43 4 0.01
44 121 0.18
45 481 0.71
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (45 bp):
CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
Found at i:8642826 original size:119 final size:119
Alignment explanation
Indices: 8642606--8643114 Score: 500
Period size: 119 Copynumber: 4.0 Consensus size: 119
8642596 TATCGTATAA
* *
8642606 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
* * * *
8642671 TTACCATATCATGCATATCGTATAGCATACTTAATCAAATAATATTTACCATAT
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATAT
* *
8642725 CATAATTAATAAAATAGTATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
8642790 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTATCATGTCATGCATAT
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATA-TT-T-A---C---CATAT
* * * *
8642853 CATATAGCATAATCAATCAAATAATATTTACCATATCATACATATTGTATAGCATAATCAATCAA
1 CATA-ATC--AAT--A--AAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAA
* * * * * *
8642918 ATAATATTTATCATGTCATACTTATCGTATAGCATAATCAATCAGATAAT-TTCACCATATCAT
59 ATAATATTTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACC--AT-AT
* *
8642981 GCATATCGTATAACATAATCAATCCAATAATATTTACCATATCATACATATCGTATAGCATAATC
1 -CATA----AT--C--AAT-AA---AATAATATTTACCACATCATGCATATCGTATAGCATAATC
* * * *
8643046 AATAAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAAT-TTTACCAT
53 AATCAAATAATATTTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCAT
8643110 AT
118 AT
8643112 CAT
1 CAT
8643115 GCATATAGTA
Statistics
Matches: 333, Mismatches: 29, Indels: 45
0.82 0.07 0.11
Matches are distributed among these distances:
119 101 0.30
120 2 0.01
121 1 0.00
122 1 0.00
125 2 0.01
127 2 0.01
128 12 0.04
129 5 0.02
130 3 0.01
131 7 0.02
132 4 0.01
133 4 0.01
134 101 0.30
135 88 0.26
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (119 bp):
CATAATCAATAAAATAATATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATAT
Found at i:8642993 original size:179 final size:180
Alignment explanation
Indices: 8642725--8643556 Score: 1074
Period size: 179 Copynumber: 4.7 Consensus size: 180
8642715 TTTACCATAT
* * * **
8642725 CATAATTAATAAAATAGTATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
* *
8642790 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTATCATGTCATGCATATCA
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
* *
8642855 TATAGCATAATCAATCAAATAATATTTACCATATCATACATATTGTATAG
131 TATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * * *
8642905 CATAATCAATCAAATAATATTTATCATGTCATACTTATCGTATAGCATAATCAATCAGATAAT-T
1 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
* * * * *
8642969 TCACCATATCATGCATATCGTATAACATAATCAATCCAATAATATTTACCATATCATACATATCG
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
* *
8643034 TATAGCATAATCAATAAAATAATATTTACCATGTCATGCATATCGTATAG
131 TATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * * *
8643084 CATAATCAATCAAATAAT-TTTACCATATCATGCATATAGTATAACATAATCAATCCAATAATAT
1 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
* * * *
8643148 TTATCATATCATACATATCGGATAGCATAATCAATAAAATAATATTTACCATGTCATGCATATCG
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
* * *
8643213 TATAGCATAATCAATCAAATAAT-TTTACAATATCATGCATATCGTACAA
131 TATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
*
8643262 CATAATCAATCAAATAATATTTACCTTGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
* * ** *
8643327 TTATCATATCATAAATATCACATAACATAGTCAATCAAATAATATTTACCATGTCATGCATATCG
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
* * * * *
8643392 TATAGAATACTTAAACAAATAATATTTACCATATCATGCATACCGTATAG
131 TATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
* * *
8643442 CATACTCAATC--A-AATA---A-CAT-TTAT-CATATCGTATAGCATAATTAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
** * * *
8643498 TTTTCATGTCATGCATA-CG--T-A-AT--T-AATCAAATAATATTTACCATTTCATGCATATCG
66 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
8643555 TA
131 TA
8643557 AAGAATACTT
Statistics
Matches: 578, Mismatches: 71, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
163 34 0.06
164 1 0.00
166 2 0.00
167 1 0.00
168 1 0.00
170 1 0.00
171 44 0.08
172 3 0.01
173 2 0.00
174 1 0.00
177 4 0.01
178 77 0.13
179 321 0.56
180 86 0.15
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (180 bp):
CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTACCATGTCATGCATATCG
TATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG
Found at i:8643045 original size:134 final size:134
Alignment explanation
Indices: 8642725--8643556 Score: 1043
Period size: 134 Copynumber: 6.3 Consensus size: 134
8642715 TTTACCATAT
* * * * *
8642725 CATAATTAATAAAATAGTATTTACCACATCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* * * * *
8642790 TTACCATATCATACATATCGTATAACATAATCAATCAAATAATATTTATCATGTCATGCATATCA
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAAT-TTTACCATATCATGCATATCG
*
8642855 TATAG
130 TATAA
*
8642860 CATAATCAATCAAATAATATTTACCATATCATACATATTGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* * * *
8642925 TTATCATGTCATACTTATCGTATAGCATAATCAATCAGATAATTTCACCATATCATGCATATCGT
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAATTTTACCATATCATGCATATCGT
8642990 ATAA
131 ATAA
* *
8642994 CATAATCAATCCAATAATATTTACCATATCATACATATCGTATAGCATAATCAATAAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* *
8643059 TTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATTTTACCATATCATGCATATAGT
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAATTTTACCATATCATGCATATCGT
8643124 ATAA
131 ATAA
* * * *
8643128 CATAATCAATCCAATAATATTTATCATATCATACATATCGGATAGCATAATCAATAAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* *
8643193 TTACCATGTCATGCATATCGTATAGCATAATCAATCAAATAATTTTACAATATCATGCATATCGT
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAATTTTACCATATCATGCATATCGT
*
8643258 ACAA
131 ATAA
* * *
8643262 CATAATCAATCAAATAATATTTACCTTGTCATGCATATCGTATAGCATAATCAATCAAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* * * ** * * *
8643327 TTATCATATCATAAATATCACATAACATAGTCAATCAAATAATATTTACCATGTCATGCATATCG
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAAT-TTTACCATATCATGCATATCG
8643392 TATAGA
130 TATA-A
* * * * * *
8643398 -ATACTTAAACAAATAATATTTACCATATCATGCATACCGTATAGCATACTCAATC--A-AATA-
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
* * ** *
8643458 --A-CAT-TTAT-CATATCGTATAGCATAATTAATCAAATAATATTTTTCATGTCATGCATA-CG
66 TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAAT-TTTACCATATCATGCATATCG
8643517 --T-A
130 TATAA
* *
8643519 -AT--T-AATCAAATAATATTTACCATTTCATGCATATCGTA
1 CATAATCAATCAAATAATATTTACCATATCATACATATCGTA
8643557 AAGAATACTT
Statistics
Matches: 628, Mismatches: 67, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
118 32 0.05
119 1 0.00
121 3 0.00
123 1 0.00
125 2 0.00
126 41 0.07
127 3 0.00
128 3 0.00
129 1 0.00
132 4 0.01
133 1 0.00
134 368 0.59
135 167 0.27
136 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (134 bp):
CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATAT
TTACCATGTCATACATATCGTATAGCATAATCAATCAAATAATTTTACCATATCATGCATATCGT
ATAA
Found at i:8643135 original size:22 final size:22
Alignment explanation
Indices: 8643067--8643135 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
8643057 ATTTACCATG
* *
8643067 TCATGCATATCGTATAGCATAA
1 TCATGCATATAGTATAACATAA
* * * *
8643089 TCAAT-CAAATAATTTTACCAT-A
1 TC-ATGCATAT-AGTATAACATAA
8643111 TCATGCATATAGTATAACATAA
1 TCATGCATATAGTATAACATAA
8643133 TCA
1 TCA
8643136 ATCCAATAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
21 9 0.26
22 17 0.50
23 8 0.24
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (22 bp):
TCATGCATATAGTATAACATAA
Found at i:8643476 original size:36 final size:36
Alignment explanation
Indices: 8643430--8643504 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
8643420 CCATATCATG
*
8643430 CATACCGTATAGCATACTCAATCAAATAACATTTAT
1 CATACCGTATAGCATAATCAATCAAATAACATTTAT
* * * *
8643466 CATATCGTATAGCATAATTAATCAAATAATATTTTT
1 CATACCGTATAGCATAATCAATCAAATAACATTTAT
8643502 CAT
1 CAT
8643505 GTCATGCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (36 bp):
CATACCGTATAGCATAATCAATCAAATAACATTTAT
Found at i:8643526 original size:37 final size:38
Alignment explanation
Indices: 8643480--8643557 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
8643470 TCGTATAGCA
**
8643480 TAATTAATCAAATAATATTTTTCATGTCATGCATA-CG
1 TAATTAATCAAATAATATTTACCATGTCATGCATATCG
*
8643517 TAATTAATCAAATAATATTTACCATTTCATGCATATCG
1 TAATTAATCAAATAATATTTACCATGTCATGCATATCG
8643555 TAA
1 TAA
8643558 AGAATACTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (38 bp):
TAATTAATCAAATAATATTTACCATGTCATGCATATCG
Found at i:8643893 original size:24 final size:24
Alignment explanation
Indices: 8643847--8643893 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8643837 TGCGAAAAAT
* *
8643847 GAAAGAAAATCAAGAACACAATAG
1 GAAAGAAAATCAAGAAAAAAATAG
8643871 GAAAGAAAATCAA-ATAAAAAATA
1 GAAAGAAAATCAAGA-AAAAAATA
8643894 TATGTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.68, C:0.09, G:0.13, T:0.11
Consensus pattern (24 bp):
GAAAGAAAATCAAGAAAAAAATAG
Found at i:8644837 original size:22 final size:22
Alignment explanation
Indices: 8644799--8644851 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
8644789 ATTATTTGCA
*
8644799 TTATTCTATTTAGCATTTAATTT
1 TTATT-TATTTAGCATTCAATTT
*
8644822 TTATTTATTT-GTCATTCATTTT
1 TTATTTATTTAG-CATTCAATTT
*
8644844 TTCTTTAT
1 TTATTTAT
8644852 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.77
23 5 0.19
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (22 bp):
TTATTTATTTAGCATTCAATTT
Found at i:8645294 original size:21 final size:21
Alignment explanation
Indices: 8645264--8645311 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8645254 ATGCACATAC
* *
8645264 TTATTCATTTTTGTATAATAT
1 TTATTTATTTTTGCATAATAT
*
8645285 TTATTTATTTTTGCATGATAT
1 TTATTTATTTTTGCATAATAT
8645306 TT-TTTA
1 TTATTTA
8645312 AAAATATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (21 bp):
TTATTTATTTTTGCATAATAT
Found at i:8645952 original size:36 final size:36
Alignment explanation
Indices: 8645909--8646237 Score: 316
Period size: 36 Copynumber: 8.6 Consensus size: 36
8645899 GACAGTACTT
8645909 AATCAAATAATATTTACCATATCGTATAGCATAATC
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
* * * * *
8645945 ACTCAAATAACATTTACCGTATCGTATAACATAATT
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
*
8645981 AATCAAATAATATTTACCATATCATATAGCATAATC
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
* * * *
8646017 AATCAAATAACATTTACCATGTCATGCATATCGAATAGAATAC
1 AATCAAATAATATTTACCA--T-AT-CGTATAGCAT--AAT-C
* *
8646060 TTAATCAAATAATCTTTATCATATCATGTATACCGTATAGCATAGTC
1 --AATCAAATAATATTTA-C----CA--TAT--CGTATAGCATAATC
* *
8646107 AATCAAATAATATTTACCGTATCGTATAGCATAATT
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
* * * * *
8646143 AATCAAATAACATTTATCGTACCGTATAGCATAATT
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
8646179 AATCAAATAATATTTACCATATCGTATAGCATAATC
1 AATCAAATAATATTTACCATATCGTATAGCATAATC
*
8646215 AATCAAATAATATTTACTATATC
1 AATCAAATAATATTTACCATATC
8646238 ATGCATTAAT
Statistics
Matches: 244, Mismatches: 34, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
36 177 0.73
38 4 0.02
39 2 0.01
40 9 0.04
42 3 0.01
43 1 0.00
44 1 0.00
45 29 0.12
46 1 0.00
47 1 0.00
48 2 0.01
49 2 0.01
50 12 0.05
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (36 bp):
AATCAAATAATATTTACCATATCGTATAGCATAATC
Found at i:8646066 original size:45 final size:45
Alignment explanation
Indices: 8646006--8646129 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 45
8645996 ACCATATCAT
* * * *
8646006 ATAGCATAATCAATCAAATAACATTTACCATGTCATGCATATCGA
1 ATAGAATACTCAATCAAATAACATTTACCATATCATGCATACCGA
* * * *
8646051 ATAGAATACTTAATCAAATAATC-TTTATCATATCATGTATACCGT
1 ATAGAATACTCAATCAAATAA-CATTTACCATATCATGCATACCGA
* * * *
8646096 ATAGCATAGTCAATCAAATAATATTTACCGTATC
1 ATAGAATACTCAATCAAATAACATTTACCATATC
8646130 GTATAGCATA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
45 62 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (45 bp):
ATAGAATACTCAATCAAATAACATTTACCATATCATGCATACCGA
Found at i:8646783 original size:19 final size:18
Alignment explanation
Indices: 8646761--8646840 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
8646751 ATTTTTTTGA
*
8646761 AAAATAGTGGTAAAACTGT
1 AAAATA-TGGTAAAATTGT
*
8646780 AAAATAT-GCAAAATAGTGGT
1 AAAATATGGTAAAAT--T-GT
*
8646800 AAAAT-T-GTAAAATTTGG
1 AAAATATGGTAAAA-TTGT
8646817 AAAATAGTGGTAAAATTGT
1 AAAATA-TGGTAAAATTGT
8646836 AAAAT
1 AAAAT
8646841 CTGAAAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
17 11 0.22
18 2 0.04
19 22 0.45
20 14 0.29
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.29
Consensus pattern (18 bp):
AAAATATGGTAAAATTGT
Found at i:8646829 original size:56 final size:56
Alignment explanation
Indices: 8646756--8646899 Score: 182
Period size: 56 Copynumber: 2.6 Consensus size: 56
8646746 CTATAATTTT
* * *
8646756 TTTGAAAAATAGTGGTAAAACTGTAAAATATGCAAAAT-AGTGGTAAAATTGTAAAA
1 TTTGGAAAATAGTGGTAAAACTGTAAAATATG-AAAATCAGTGGCAAAATTATAAAA
* * *
8646812 TTTGGAAAATAGTGGTAAAATTGTAAAATCTGAAAATCATTGGCAAAATTATAAAA
1 TTTGGAAAATAGTGGTAAAACTGTAAAATATGAAAATCAGTGGCAAAATTATAAAA
* * *
8646868 TATGGAAAATCAGTGGCAAAACTATAAAATAT
1 TTTGGAAAAT-AGTGGTAAAACTGTAAAATAT
8646900 TGGCAATTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
55 5 0.07
56 53 0.71
57 17 0.23
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (56 bp):
TTTGGAAAATAGTGGTAAAACTGTAAAATATGAAAATCAGTGGCAAAATTATAAAA
Found at i:8646884 original size:29 final size:28
Alignment explanation
Indices: 8646761--8646899 Score: 163
Period size: 28 Copynumber: 4.9 Consensus size: 28
8646751 ATTTTTTTGA
* *
8646761 AAAATAGTGGTAAAACTGTAAAATATGC
1 AAAATAGTGGTAAAATTGTAAAATATGG
*
8646789 AAAATAGTGGTAAAATTGTAAAATTTGG
1 AAAATAGTGGTAAAATTGTAAAATATGG
*
8646817 AAAATAGTGGTAAAATTGTAAAATCT-G
1 AAAATAGTGGTAAAATTGTAAAATATGG
* * *
8646844 AAAATCATTGGCAAAATTATAAAATATGG
1 AAAAT-AGTGGTAAAATTGTAAAATATGG
* * *
8646873 AAAATCAGTGGCAAAACTATAAAATAT
1 AAAAT-AGTGGTAAAATTGTAAAATAT
8646900 TGGCAATTTC
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
27 6 0.06
28 67 0.68
29 26 0.26
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (28 bp):
AAAATAGTGGTAAAATTGTAAAATATGG
Found at i:8648140 original size:26 final size:26
Alignment explanation
Indices: 8648120--8648207 Score: 131
Period size: 26 Copynumber: 3.4 Consensus size: 26
8648110 ACGAGCCCAA
* *
8648120 TCAGTATAACGCTCTTACGAGCCATT
1 TCAGTATATCGCTCTTACGAGCCAGT
8648146 TCAGTATATCGCTCTTACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
* *
8648172 TCAGTATATCGCTCTTACAAACCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
*
8648198 TTAGTATATC
1 TCAGTATATC
8648208 TCCAATGTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (26 bp):
TCAGTATATCGCTCTTACGAGCCAGT
Found at i:8649583 original size:29 final size:29
Alignment explanation
Indices: 8649541--8649598 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8649531 GTAGGTAAGG
8649541 ATGTGAGAATAATAATGTCCTCTAAACTA
1 ATGTGAGAATAATAATGTCCTCTAAACTA
8649570 ATGTGAGAATAATAATGTCCTCTAAACTA
1 ATGTGAGAATAATAATGTCCTCTAAACTA
8649599 TTTTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (29 bp):
ATGTGAGAATAATAATGTCCTCTAAACTA
Found at i:8654363 original size:17 final size:17
Alignment explanation
Indices: 8654341--8654379 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
8654331 AGGTGAAGAA
*
8654341 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAGTT
8654358 CTTGTTCGTAGAGAGTT
1 CTTGTTCGTAGAGAGTT
8654375 CTTGT
1 CTTGT
8654380 CAAGGTGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.28, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAGTT
Found at i:8661628 original size:30 final size:30
Alignment explanation
Indices: 8661592--8661675 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
8661582 AGAAAAGTAT
8661592 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
8661622 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
*
8661652 GGGGTTAAAATGTGA-TTTTGGAAA
1 GGGGTTAAAATGTAATTTTTGGAAA
8661676 AGATTAAGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 9 0.17
30 44 0.83
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTTGGAAAGTTTA
Found at i:8662522 original size:19 final size:20
Alignment explanation
Indices: 8662500--8662538 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8662490 TTAGAACCTA
*
8662500 TTTTTATATTTCTA-ACCCT
1 TTTTTATATGTCTACACCCT
*
8662519 TTTTTTTATGTCTACACCCT
1 TTTTTATATGTCTACACCCT
8662539 ATTTGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTATATGTCTACACCCT
Found at i:8663939 original size:85 final size:85
Alignment explanation
Indices: 8663785--8663952 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
8663775 TCGCTTCATT
* * * * * * * *
8663785 GATTTGGTCTACTTCTCTTTGTCTCATCAAGAAGATGGCCGCTTCATTATTTTAATCCACTTCTT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTACTTTAATCCACTCCTC
8663850 TGTATCTCATCAGGAAGACA
66 TGTATCTCATCAGGAAGACA
* * *
8663870 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCACTTTATTGCTTTAA-CTCACTCCT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTACTTTAATC-CACTCCT
8663934 CTGTATCTCATCAGGAAGA
65 CTGTATCTCATCAGGAAGA
8663953 TGGGGGTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTACTTTAATCCACTCCTC
TGTATCTCATCAGGAAGACA
Found at i:8664254 original size:46 final size:45
Alignment explanation
Indices: 8664031--8664469 Score: 483
Period size: 46 Copynumber: 9.9 Consensus size: 45
8664021 CAAGAAGATA
* * *
8664031 GCTTCAATTTGCCCCTCTTAATTTAGGGGTAAAAGATTGGAAAG-G
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT-GAAAGTG
** * *
8664076 TTTTCAATCTACCCCTCTTGA-TTAGGGGTAAAAGATTGGAA-TG
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAGTG
* * * *
8664119 ACTTCAATCTGCCCCT-TTTAATTAGGGGTAAAAGATTGGAA-T-
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAGTG
*
8664161 -CTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTGGATGAG-G
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT-GA-AAGTG
8664205 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAATGTG
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAA-GTG
**
8664251 GCTTCAATCTGCCTTTCTTGAC-TAGGGGTAAAAGATTGAAA-TG
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAGTG
* * * * *
8664294 GCTTTAATCT-ACACTCTTGACTTAGGGGTAAAAGATTGGATGATG
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAG-TG
* * * * * *
8664339 GCTTTAATCTGTCCCTTTTGACTTAAGGGAAAAAGATTGGAATGTG
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT-GAAAGTG
*
8664385 ACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAG-G
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAGTG
*
8664429 TCTTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGAAA
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAA
8664470 TGACTGCAGT
Statistics
Matches: 342, Mismatches: 36, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
41 31 0.09
42 15 0.04
43 86 0.25
44 39 0.11
45 74 0.22
46 93 0.27
47 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGAAAGTG
Found at i:8664342 original size:134 final size:135
Alignment explanation
Indices: 8664031--8664466 Score: 554
Period size: 134 Copynumber: 3.3 Consensus size: 135
8664021 CAAGAAGATA
* * * * *
8664031 GCTTCAATTTGCCCCTCTTAATTTAGGGGTAAAAGATTGGA--AAGGTTTTCAATCTACCCCTCT
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGAAGG-CTTCAATCTGCCCCTCT
* *
8664094 TGA-TTAGGGGTAAAAGATTGGAA--TGACTTCAATCTGCCCCTT-TTAATTAGGGGTAAAAGAT
65 TGACTTAGGGGTAAAAGATTGGAATGTGACTTCAATCTG-CCCTTCTTGACTAGGGGTAAAAGAT
*
8664155 TGGAAT-
129 TGAAATG
*
8664161 -CTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTGGATGAGGGCTTCAATCTGCCCCTCTT
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGAAGGCTTCAATCTGCCCCTCTT
* * *
8664224 GACTTAGGGGTAAAAGATTGAAATGTGGCTTCAATCTGCCTTTCTTGACTAGGGGTAAAAGATTG
66 GACTTAGGGGTAAAAGATTGGAATGTGACTTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTG
8664289 AAATG
131 AAATG
* * * * * * *
8664294 GCTTTAATCT-ACACTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGTCCCTTTT
1 GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGAAGGCTTCAATCTGCCCCTCTT
* * *
8664358 GACTTAAGGGAAAAAGATTGGAATGTGACTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
66 GACTTAGGGGTAAAAGATTGGAATGTGACTTCAATCTGCCCTTCTTGAC-TAGGGGTAAAAGATT
8664423 GAAA-G
130 GAAATG
8664428 GTCTTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTG
1 G-CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTG
8664467 AAATGACTGC
Statistics
Matches: 267, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
128 19 0.07
129 36 0.13
130 22 0.08
131 4 0.01
132 34 0.13
133 8 0.03
134 92 0.34
135 43 0.16
136 9 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (135 bp):
GCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATGAAGGCTTCAATCTGCCCCTCTT
GACTTAGGGGTAAAAGATTGGAATGTGACTTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTG
AAATG
Found at i:8664760 original size:49 final size:49
Alignment explanation
Indices: 8664665--8664761 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
8664655 TAGGGTATAA
* * * *
8664665 GATTCACCGTTACGGCCTCAATCTTTCCCGTCATGTTTTTAAGGTACCG
1 GATTCACCGTTACGGCCTCAACCTTTCCCGTCATATCTTCAAGGTACCG
* * * *
8664714 GATTCATCTTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACC
1 GATTCACCGTTACGGCCTCAACCTTTCCCGTCATATCTTCAAGGTACC
8664762 AAATTTGTCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (49 bp):
GATTCACCGTTACGGCCTCAACCTTTCCCGTCATATCTTCAAGGTACCG
Found at i:8664789 original size:49 final size:49
Alignment explanation
Indices: 8664729--8664853 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
8664719 ATCTTTACGG
*
8664729 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAAATTTGTCGTTGTGA
1 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAAATTTGTCATTGTGA
* * * * * * ***
8664778 CCTTAATCTTT-CCATCACATCTTCTAAGGTATCGGGTTTGTCATTGTGA
1 CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAAATTTGTCATTGTGA
8664827 CCTCAACCTTTCCCTT-ATATCTTCATG
1 CCTCAACCTTTCCCTTCATATCTTCATG
8664854 TTTCCTTGGT
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
48 13 0.22
49 43 0.73
50 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCATATCTTCATGGTACCAAATTTGTCATTGTGA
Found at i:8665690 original size:17 final size:15
Alignment explanation
Indices: 8665656--8665703 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
8665646 CAACCTCTCC
8665656 CTTTTGTTTCTTTTTT
1 CTTTTGTTT-TTTTTT
8665672 CTTTATGTTTTTTTCTT
1 CTTT-TGTTTTTTT-TT
8665689 CTTTT-TATTTTTTTT
1 CTTTTGT-TTTTTTTT
8665704 TGGGTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.10
16 15 0.52
17 11 0.38
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (15 bp):
CTTTTGTTTTTTTTT
Found at i:8670994 original size:30 final size:29
Alignment explanation
Indices: 8670925--8671072 Score: 163
Period size: 30 Copynumber: 5.0 Consensus size: 29
8670915 TTCGAAGAAT
** * *
8670925 TTTGGGGTTAAAACATAAATTTAGGAAAG
1 TTTGGGGTTAAAATGTAATTTTAGGAAAA
* * *
8670954 TTTAGGGTTAAAATGTAATTTTTGGAAAG
1 TTTGGGGTTAAAATGTAATTTTAGGAAAA
*
8670983 TTTAGGGGTTAAAATGTGATTTTAGGAAAA
1 TTT-GGGGTTAAAATGTAATTTTAGGAAAA
*
8671013 TTTGAGGGTTAAAATGTAATTTTAGAAAAA
1 TTTG-GGGTTAAAATGTAATTTTAGGAAAA
* *
8671043 TTTGAGGGTCAAAATGTGATTTT-GGAAAA
1 TTTG-GGGTTAAAATGTAATTTTAGGAAAA
8671072 T
1 T
8671073 ATTAGAGATC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 34 0.33
30 69 0.67
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.36
Consensus pattern (29 bp):
TTTGGGGTTAAAATGTAATTTTAGGAAAA
Found at i:8671035 original size:60 final size:59
Alignment explanation
Indices: 8670944--8671095 Score: 182
Period size: 60 Copynumber: 2.5 Consensus size: 59
8670934 AAAACATAAA
* * * * *
8670944 TTTAGGAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTT-AGGGGTTAAAATGTGAT
1 TTTAGGAAAATTTAGGGTTAAAATGTAATTTTAGAAAAATTTGA-GGGTCAAAATGTGAT
8671003 TTTAGGAAAATTTGAGGGTTAAAATGTAATTTTAGAAAAATTTGAGGGTCAAAATGTGAT
1 TTTAGGAAAATTT-AGGGTTAAAATGTAATTTTAGAAAAATTTGAGGGTCAAAATGTGAT
* * *
8671063 TTT-GGAAAATATTAGAGATCAAAATGTGATTTT
1 TTTAGGAAAAT-TTAG-GGTTAAAATGTAATTTT
8671096 TAAATAAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
59 21 0.26
60 59 0.73
61 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.38
Consensus pattern (59 bp):
TTTAGGAAAATTTAGGGTTAAAATGTAATTTTAGAAAAATTTGAGGGTCAAAATGTGAT
Found at i:8671085 original size:30 final size:30
Alignment explanation
Indices: 8670957--8671095 Score: 126
Period size: 30 Copynumber: 4.6 Consensus size: 30
8670947 AGGAAAGTTT
* * *
8670957 AGGGTTAAAATGTAATTTTTGGAAAGT-TT-
1 AGGGTCAAAATGTGA-TTTTGGAAAATATTG
*
8670986 AGGGGTTAAAATGTGATTTTAGGAAAAT-TTG
1 A-GGGTCAAAATGTGATTTT-GGAAAATATTG
* * *
8671017 AGGGTTAAAATGTAATTTTAGAAAA-ATTTG
1 AGGGTCAAAATGTGATTTTGGAAAATA-TTG
8671047 AGGGTCAAAATGTGATTTTGGAAAATATT-
1 AGGGTCAAAATGTGATTTTGGAAAATATTG
*
8671076 AGAGATCAAAATGTGATTTT
1 AG-GGTCAAAATGTGATTTT
8671096 TAAATAAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
29 12 0.13
30 81 0.85
31 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.37
Consensus pattern (30 bp):
AGGGTCAAAATGTGATTTTGGAAAATATTG
Found at i:8671337 original size:6 final size:6
Alignment explanation
Indices: 8671326--8671352 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8671316 ATTCGGGTCT
8671326 GGTACG GGTACG GGTACG GGTACG GGT
1 GGTACG GGTACG GGTACG GGTACG GGT
8671353 CGCGGGTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.52, T:0.19
Consensus pattern (6 bp):
GGTACG
Found at i:8671363 original size:18 final size:17
Alignment explanation
Indices: 8671319--8671363 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
8671309 GGACCCTATT
*
8671319 CGGGTCTGGTACGGGTA
1 CGGGTCGGGTACGGGTA
*
8671336 CGGGTACGGGTACGGGTCG
1 CGGGT-CGGGTACGGGT-A
8671355 CGGGTCGGG
1 CGGGTCGGG
8671364 CGCCGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.09, C:0.20, G:0.53, T:0.18
Consensus pattern (17 bp):
CGGGTCGGGTACGGGTA
Found at i:8679187 original size:13 final size:12
Alignment explanation
Indices: 8679164--8679193 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
8679154 AAATTTAATT
8679164 TAATAATATAAA
1 TAATAATATAAA
8679176 TAATAGATATAAA
1 TAATA-ATATAAA
8679189 TAATA
1 TAATA
8679194 CAATTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TAATAATATAAA
Found at i:8681255 original size:297 final size:297
Alignment explanation
Indices: 8680721--8681312 Score: 1148
Period size: 297 Copynumber: 2.0 Consensus size: 297
8680711 ATAAAGATCG
8680721 CATCTTATATAATTAACAAAGTTCCAACTAAATCAACTAAAAGCTTTTTATGAGCTTTGGATTGA
1 CATCTTATATAATTAACAAAGTTCCAACTAAATCAACTAAAAGCTTTTTATGAGCTTTGGATTGA
8680786 CAAAAAGCTTAGCTTAAAGCATTTGCATATTTGGGGATGTCCATCTAAGGCTAAGCCTTATAGGC
66 CAAAAAGCTTAGCTTAAAGCATTTGCATATTTGGGGATGTCCATCTAAGGCTAAGCCTTATAGGC
8680851 CAAATGAAAGGAAATTGGACTGAAGGACTATTGATTGCCATTTCATAGAATACTCTAAAAGGGCT
131 CAAATGAAAGGAAATTGGACTGAAGGACTATTGATTGCCATTTCATAGAATACTCTAAAAGGGCT
*
8680916 AAGGGTTACAAAGTCTATGATCCCATACTAAGGCTATTTTGAGACGGTTAATGCTCAATTCTTTG
196 AAGGGTTACAAAGTCAATGATCCCATACTAAGGCTATTTTGAGACGGTTAATGCTCAATTCTTTG
8680981 AGGATGTTAAGTTTGGAAGGGGAGAGAATTAAGAGTA
261 AGGATGTTAAGTTTGGAAGGGGAGAGAATTAAGAGTA
*
8681018 CATCTTATATAATTAACAAAGTTCCAACTAAATCAACTAAAAGCTTTTTATGAGCTTTGGATTGG
1 CATCTTATATAATTAACAAAGTTCCAACTAAATCAACTAAAAGCTTTTTATGAGCTTTGGATTGA
8681083 CAAAAAGCTTAGCTTAAAGCATTTGCATATTTGGGGATGTCCATCTAAGGCTAAGCCTTATAGGC
66 CAAAAAGCTTAGCTTAAAGCATTTGCATATTTGGGGATGTCCATCTAAGGCTAAGCCTTATAGGC
*
8681148 CAAATGAAAGGAAATTGGATTGAAGGACTATTGATTGCCATTTCATAGAATACTCTAAAAGGGCT
131 CAAATGAAAGGAAATTGGACTGAAGGACTATTGATTGCCATTTCATAGAATACTCTAAAAGGGCT
*
8681213 AAGGGTTACAAAGTCAATGATCCCATACTAAGGCTATTTTGAGACGGTTAATGCTTAATTCTTTG
196 AAGGGTTACAAAGTCAATGATCCCATACTAAGGCTATTTTGAGACGGTTAATGCTCAATTCTTTG
8681278 AGGATGTTAAGTTTGGAAGGGGAGAGAATTAAGAG
261 AGGATGTTAAGTTTGGAAGGGGAGAGAATTAAGAG
8681313 CATTGTCTTT
Statistics
Matches: 291, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 291 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (297 bp):
CATCTTATATAATTAACAAAGTTCCAACTAAATCAACTAAAAGCTTTTTATGAGCTTTGGATTGA
CAAAAAGCTTAGCTTAAAGCATTTGCATATTTGGGGATGTCCATCTAAGGCTAAGCCTTATAGGC
CAAATGAAAGGAAATTGGACTGAAGGACTATTGATTGCCATTTCATAGAATACTCTAAAAGGGCT
AAGGGTTACAAAGTCAATGATCCCATACTAAGGCTATTTTGAGACGGTTAATGCTCAATTCTTTG
AGGATGTTAAGTTTGGAAGGGGAGAGAATTAAGAGTA
Found at i:8688202 original size:2 final size:2
Alignment explanation
Indices: 8688195--8688222 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8688185 ACGTGTACGG
8688195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8688223 TAAAATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8693709 original size:19 final size:19
Alignment explanation
Indices: 8693687--8693726 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8693677 ATTCCAAAAA
8693687 ATAT-TTATATTTTAATATT
1 ATATATTATA-TTTAATATT
*
8693706 ATATATTTTATTTAATATT
1 ATATATTATATTTAATATT
8693725 AT
1 AT
8693727 TTTCTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATATTATATTTAATATT
Found at i:8693712 original size:15 final size:14
Alignment explanation
Indices: 8693686--8693715 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8693676 TATTCCAAAA
8693686 AATATTTATATTTT
1 AATATTTATATTTT
8693700 AATATTATATATTTT
1 AATATT-TATATTTT
8693715 A
1 A
8693716 TTTAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATATTTATATTTT
Found at i:8698977 original size:50 final size:50
Alignment explanation
Indices: 8698895--8699460 Score: 397
Period size: 50 Copynumber: 11.4 Consensus size: 50
8698885 GGTTTGACAA
* * * * * * *
8698895 GGAAAGGTCGAGGCCACAATGACGAACTCGGTACCTAAGAAGACGTGATG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * *
8698945 GGAAAGGTTGAGGCCGCAACAGTGAACCCGGTACC-ATGAAGA-GATGAAG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATG-TGAAG
* ** * *** * *
8698994 GG-AAGGATTGAGGTCGTGACGACGAATTTGGTACCTTAA-AAGATGCGATG
1 GGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACC-TAAGAAGATGTGAAG
* * * **
8699044 GGAAAGGATTGAGGCCGCAACAGCGAACCTGGTACC-ATGAAGATACGAAG
1 GGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * ** * * *
8699094 GGAAAGGTTGAGGTCACAACGGCAAACCTAGTACCTAAAAAGGTGTGACG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * *
8699144 GGAAAGGTTGAGGTCGCAACGACGAACCCGATACCATGAA-AAGA--TGAAA
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-T-AAGAAGATGTGAAG
* * * * ** *
8699193 GGAAAGATTGAGGCTGCGACGGAGAATTCGGTACCTTAGAAGATGTGAAG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * *
8699243 GGAAAGGTTGAGGCCGTAACGGCGAACTCGGCACCTAAGAAGATGTGATA-
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGA-AG
* * *
8699293 GGAAAGGTTGAGACCGCAACGGCGAACCCGGTACC-ATGAAGATATGAAG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * *
8699342 GGAAAGGTTGAGACTGTAACGACGAACCCGGTACCATGAA-AAGA--TGAAG
1 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-T-AAGAAGATGTGAAG
* * * * *
8699391 GG-AAGGATTGAAGCCGCGACGGTGAATCCGGTACCTTAA-AAGATGTGACG
1 GGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACC-TAAGAAGATGTGAAG
*
8699441 GGAAAGGTTGAGGCCACAAC
1 GGAAAGGTTGAGGCCGCAAC
8699461 AGTGAACTCG
Statistics
Matches: 401, Mismatches: 93, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.00
48 21 0.05
49 154 0.38
50 181 0.45
51 41 0.10
52 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.15
Consensus pattern (50 bp):
GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
Found at i:8699197 original size:99 final size:99
Alignment explanation
Indices: 8698924--8699460 Score: 410
Period size: 99 Copynumber: 5.4 Consensus size: 99
8698914 TGACGAACTC
* * * * *
8698924 GGTACCTAAGAAGACGTGATGGGAAAGGTTGAGGCCGCAAC-AGTGAACCCGGTACCATGAAGAG
1 GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGGTACCATGAAAAG
* * * * * **
8698988 ATG-AAGGGAAGGATTGAGGTCGTGACGACGAATTT
65 ATGAAAGGAAAGG-TTGAGGCCGCGACGGCAAACCT
* * * * *
8699023 GGTACCTTAAAAGATGCGATGGGAAAGGATTGAGGCCGCAAC-AGCGAACCTGGTACCATGAAGA
1 GGTACCTAAAAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGA-CGAACCCGGTACCATGAAAA
* * * * * *
8699087 TACGAAGGGAAAGGTTGAGGTCACAACGGCAAACCT
64 GATGAAAGGAAAGGTTGAGGCCGCGACGGCAAACCT
* * * * *
8699123 AGTACCTAAAAAGGTGTGACGGGAAAGGTTGAGGTCGCAACGACGAACCCGATACCATGAAAAGA
1 GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAAAGA
* * *
8699188 TGAAAGGAAAGATTGAGGCTGCGACGG-AGAA-TT
66 TGAAAGGAAAGGTTGAGGCCGCGACGGCA-AACCT
* * * * * *
8699221 CGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACTCGGCACC-T-AAGAA
1 -GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAA-AA
* * * * *
8699284 GATGTGATAGGAAAGGTTGAGACCGCAACGGCGAACCC
64 GA--TGAAAGGAAAGGTTGAGGCCGCGACGGCAAACCT
** * * * *
8699322 GGTACC-ATGAAGATATGAAGGGAAAGGTTGAGACTGTAACGACGAACCCGGTACCATGAAAAGA
1 GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAAAGA
* * * *
8699386 TG-AAGGGAAGGATTGAAGCCGCGACGGTGAATCC-
66 TGAAAGGAAAGG-TTGAGGCCGCGACGG-CAAACCT
* * *
8699420 GGTACCTTAAAAGATGTGACGGGAAAGGTTGAGGCCACAAC
1 GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAAC
8699461 AGTGAACTCG
Statistics
Matches: 344, Mismatches: 79, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
97 9 0.03
98 27 0.08
99 190 0.55
100 109 0.32
101 9 0.03
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (99 bp):
GGTACCTAAAAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAAAGA
TGAAAGGAAAGGTTGAGGCCGCGACGGCAAACCT
Found at i:8699235 original size:149 final size:148
Alignment explanation
Indices: 8699074--8699353 Score: 346
Period size: 149 Copynumber: 1.9 Consensus size: 148
8699064 CAGCGAACCT
* * *
8699074 GGTACCATGAAGATACGAAGGGAAAGGTTGAGGTCACAACGGCAAAC-CTAGTACCTAAAAAGGT
1 GGTACCATGAAGATACGAAGGGAAAGGTTGAGGCCACAACGGCAAACTC-AGCACCTAAAAAGAT
* **
8699138 GTGACGGGAAAGGTTGAGGTCGCAACGACGAACCCGATACCATGAAAAGATGAAAGGAAAGATTG
65 GTGACAGGAAAGGTTGAGACCGCAACGACGAACCCGATACCATGAAAAGATGAAAGGAAAGATTG
8699203 AGGCTGCGACGGAGAATTC
130 AGGCTGCGACGGAGAATTC
* ** ** * * *
8699222 GGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACTCGGCACCTAAGAAGAT
1 GGTACCAT-GAAGATACGAAGGGAAAGGTTGAGGCCACAACGGCAAACTCAGCACCTAAAAAGAT
* * * * * * *
8699287 GTGATAGGAAAGGTTGAGACCGCAACGGCGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTG
65 GTGACAGGAAAGGTTGAGACCGCAACGACGAACCCGATACCATGAAAAGATGAAAGGAAAGATTG
8699352 AG
130 AG
8699354 ACTGTAACGA
Statistics
Matches: 109, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
148 7 0.06
149 101 0.93
150 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.33, T:0.15
Consensus pattern (148 bp):
GGTACCATGAAGATACGAAGGGAAAGGTTGAGGCCACAACGGCAAACTCAGCACCTAAAAAGATG
TGACAGGAAAGGTTGAGACCGCAACGACGAACCCGATACCATGAAAAGATGAAAGGAAAGATTGA
GGCTGCGACGGAGAATTC
Found at i:8699388 original size:198 final size:198
Alignment explanation
Indices: 8698925--8699467 Score: 589
Period size: 199 Copynumber: 2.7 Consensus size: 198
8698915 GACGAACTCG
* ** * * *
8698925 GTACCTAAGAAGACGTGATGGGAAAGGTTGAGGC-CGCAAC-AGTGAACCCGGTACCATGAAGAG
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGA-GCTCGCAACGA-CGAACCCGGTACCATGAAAAG
* * * *
8698988 ATGAAGGGAAGGATTGAGG-TCGTGAC-GACGAATTTGGTACCTTAAAAGATGCGATGGGAAAGG
64 ATGAAGGGAAGGATTGAGGCT-GCGACGGA-GAATTCGGTACCTTAAAAGATGTGAAGGGAAAGG
* * **
8699051 ATTGAGGCCGCAACAGCGAACCTGGTACCATGAAGATACGAAGGGAAAGGTTGAGGTCACAACGG
127 -TTGAGGCCGCAACAGCGAACCTGGCACCAAGAAGATACGAAGGGAAAGGTTGAGACCACAACGG
*
8699116 CAAACCTA
191 CAAACCCA
* * * * *
8699124 GTACCTAAAAAGGTGTGACGGGAAAGGTTGAGGTCGCAACGACGAACCCGATACCATGAAAAGAT
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAACCCGGTACCATGAAAAGAT
* * *
8699189 GAAAGGAAAGATTGAGGCTGCGACGGAGAATTCGGTACCTTAGAAGATGTGAAGGGAAAGGTTGA
66 GAAGGGAAGGATTGAGGCTGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTGA
* * ** * *
8699254 GGCCGTAACGGCGAA-CTCGGCACCTAAGAAGATGTGATA-GGAAAGGTTGAGACCGCAACGGCG
131 GGCCGCAACAGCGAACCT-GGCACC-AAGAAGATACGA-AGGGAAAGGTTGAGACCACAACGGCA
*
8699317 AACCCG
193 AACCCA
** *
8699323 GTACC-ATGAAGATATGAAGGGAAAGGTTGAGACT-GTAACGACGAACCCGGTACCATGAAAAGA
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGAG-CTCGCAACGACGAACCCGGTACCATGAAAAGA
* * * * *
8699386 TGAAGGGAAGGATTGAAGCCGCGACGGTGAATCCGGTACCTTAAAAGATGTGACGGGAAAGGTTG
65 TGAAGGGAAGGATTGAGGCTGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTG
* *
8699451 AGGCCACAACAGTGAAC
130 AGGCCGCAACAGCGAAC
8699468 TCGATACCTT
Statistics
Matches: 288, Mismatches: 47, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
197 2 0.01
198 140 0.49
199 141 0.49
200 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.16
Consensus pattern (198 bp):
GTACCTAAAAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAACCCGGTACCATGAAAAGAT
GAAGGGAAGGATTGAGGCTGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTGA
GGCCGCAACAGCGAACCTGGCACCAAGAAGATACGAAGGGAAAGGTTGAGACCACAACGGCAAAC
CCA
Found at i:8699470 original size:198 final size:198
Alignment explanation
Indices: 8698925--8699470 Score: 602
Period size: 198 Copynumber: 2.8 Consensus size: 198
8698915 GACGAACTCG
* ** * * *
8698925 GTACCTAAGAAGACGTGATGGGAAAGGTTGAGGC-CGCAAC-AGTGAACCCGGTACCATGAAGAG
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGA-GCTCGCAACGA-CGAACCCGGTACCATGAAAAG
* * * * *
8698988 ATGAAGGGAAGGATTGAGGTCGTGAC-GACGAATTTGGTACCTTAAAAGATGCGATGGGAAAGGA
64 ATGAAGGGAAGGATTGAGGCCGCGACGGA-GAATTCGGTACCTTAAAAGATGTGAAGGGAAAGG-
* * **
8699052 TTGAGGCCGCAACAGCGAAC-CTGGTACCATGAAGATACGAAGGGAAAGGTTGAGGTCACAACGG
127 TTGAGGCCGCAACAGCGAACTC-GGCACCAAGAAGATACGAAGGGAAAGGTTGAGACCACAACGG
*
8699116 CAAACCTA
191 CAAACCCA
* * * * *
8699124 GTACCTAAAAAGGTGTGACGGGAAAGGTTGAGGTCGCAACGACGAACCCGATACCATGAAAAGAT
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAACCCGGTACCATGAAAAGAT
* * * *
8699189 GAAAGGAAAGATTGAGGCTGCGACGGAGAATTCGGTACCTTAGAAGATGTGAAGGGAAAGGTTGA
66 GAAGGGAAGGATTGAGGCCGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTGA
* * ** * *
8699254 GGCCGTAACGGCGAACTCGGCACCTAAGAAGATGTGATA-GGAAAGGTTGAGACCGCAACGGCGA
131 GGCCGCAACAGCGAACTCGGCACC-AAGAAGATACGA-AGGGAAAGGTTGAGACCACAACGGCAA
*
8699318 ACCCG
194 ACCCA
** *
8699323 GTACC-ATGAAGATATGAAGGGAAAGGTTGAGACT-GTAACGACGAACCCGGTACCATGAAAAGA
1 GTACCTAAAAAGATATGAAGGGAAAGGTTGAG-CTCGCAACGACGAACCCGGTACCATGAAAAGA
* * * *
8699386 TGAAGGGAAGGATTGAAGCCGCGACGGTGAATCCGGTACCTTAAAAGATGTGACGGGAAAGGTTG
65 TGAAGGGAAGGATTGAGGCCGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTG
* *
8699451 AGGCCACAACAGTGAACTCG
130 AGGCCGCAACAGCGAACTCG
8699471 ATACCTTAAA
Statistics
Matches: 291, Mismatches: 49, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
198 145 0.50
199 142 0.49
200 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (198 bp):
GTACCTAAAAAGATATGAAGGGAAAGGTTGAGCTCGCAACGACGAACCCGGTACCATGAAAAGAT
GAAGGGAAGGATTGAGGCCGCGACGGAGAATTCGGTACCTTAAAAGATGTGAAGGGAAAGGTTGA
GGCCGCAACAGCGAACTCGGCACCAAGAAGATACGAAGGGAAAGGTTGAGACCACAACGGCAAAC
CCA
Found at i:8699795 original size:41 final size:42
Alignment explanation
Indices: 8699716--8699797 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
8699706 ATCATCATTT
* * * *
8699716 AGTCTTTTACCCTTTAGTCAAGAAGGGTAGATTGAAGATTCC
1 AGTCTTTTACCCTTTAATCAAGAAGGGCAGAATAAAGATTCC
*
8699758 AGTCTTTTACCC-TTAATCAAGAGGGGCAGAATAAAGATTC
1 AGTCTTTTACCCTTTAATCAAGAAGGGCAGAATAAAGATTC
8699798 AGATCTCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
AGTCTTTTACCCTTTAATCAAGAAGGGCAGAATAAAGATTCC
Found at i:8700276 original size:209 final size:209
Alignment explanation
Indices: 8699916--8701029 Score: 1464
Period size: 209 Copynumber: 5.3 Consensus size: 209
8699906 CAGTTATCCA
* ** * * * * *
8699916 AAGCAATAAAATGGGCAACTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTTTTCTTGATA
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
** * * *
8699981 AGATACAGAGAAAAGGATTGAAACAAGTGAGGCGGTCATCTTCCTAATGAGATACAGAGAAGTAT
66 AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAT
* ** * * *
8700046 ACCAACTCAATGAAACAAAGCTCAATGCAAGCGAAACTTCAAACCTCAACTTCCTGATGAGATAC
131 ACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATAC
*
8700111 TGAGAAGCAGGTCG
196 TGAGAAGCAGGTTG
* *
8700125 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCTGTCTTCCTAATG
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
* ** *
8700190 AGATACAAAGAAGCTAATTAAAACGAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAT
66 AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAT
* * *
8700255 ACCAAATCAATGAAACAAAGCTCAAAGTGAGCGAAACTTCGAACCCCAACTTCTTGATGAGATAC
131 ACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATAC
*
8700320 TGAGAAGCAAGTTG
196 TGAGAAGCAGGTTG
** *** * * *
8700334 AAGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCATCTTCCTGATG
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
* * * * * *
8700399 AGATACAGAGAAGTGGATCAAAATAA-CGAGGC-AGTCATCTTCCTAATGAGATACTA-AGAACT
66 AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGA-TCATCTTCCTGATGAGATAC-AGAGAAGT
* * *
8700461 AGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAGCTTCGAA-CCCAGCTTTCTGATGAGAT
129 ATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGAT
*
8700525 ACTGAGAAGCAGGTTA
194 ACTGAGAAGCAGGTTG
* * * *
8700541 AAGCAATAAAATGGTCGTCTTCCTGATAAGATACAGAAAAGTGGTCCAAATCCATCTTCCTGATG
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
*
8700606 AGATACAGAGAAGCGGATTAAAACAAGTGAGGC-AGTCATCTTCTTGATGAGATACAGAGAAGTA
66 AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGA-TCATCTTCCTGATGAGATACAGAGAAGTA
* ** * *
8700670 TATCAAATCAATGAAACAAAGCTCAATGTGAGAAAAACTTCGAACCCCAGCTTCTTGATGAGGTA
130 TACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATA
*
8700735 CTGAGAAGCAGGTCG
195 CTGAGAAGCAGGTTG
* * *
8700750 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAATTCTTCTTCCTGATG
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
* * * ** * *
8700815 AGATACAGAGAAGCAGATTAAAATAGGTGATACGGTCATCTTCCTGATCAGATACAGAGAAGTAT
66 AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAT
* * * *
8700880 GCCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAATCTCAGCTTCCTGATGAGATAC
131 ACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATAC
*
8700945 TAAGAAGCAGGTTG
196 TGAGAAGCAGGTTG
* * * *
8700959 AAGCAATAAAGTGGTTGTCTTCCTGATGAGATACACAGAAGTGGACCAAATCCGTCTTCTTGATG
1 AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
8701024 AGATAC
66 AGATAC
8701030 CGAAAAGTAG
Statistics
Matches: 786, Mismatches: 113, Indels: 12
0.86 0.12 0.01
Matches are distributed among these distances:
207 110 0.14
208 141 0.18
209 535 0.68
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
AAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATG
AGATACAGAGAAGCGGATTAAAACAAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAT
ACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATAC
TGAGAAGCAGGTTG
Found at i:8701470 original size:18 final size:17
Alignment explanation
Indices: 8701411--8701472 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
8701401 AATGGACCCA
8701411 ATTTTAAATTTGAATTT
1 ATTTTAAATTTGAATTT
* * *
8701428 ACTTTAAATTTAAAACTT
1 ATTTTAAATTT-GAATTT
8701446 A-TTTAAAGTTTGAATTT
1 ATTTTAAA-TTTGAATTT
8701463 ATTTTAAATT
1 ATTTTAAATT
8701473 AAATTTAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTGAATTT
Found at i:8703172 original size:30 final size:30
Alignment explanation
Indices: 8703138--8703518 Score: 330
Period size: 30 Copynumber: 12.9 Consensus size: 30
8703128 AGAAATCAAG
*
8703138 TTTTGACCCTCGAACTTTTCAAAAATTATA
1 TTTTGACCCTCGAACTTTCCAAAAATTATA
8703168 TTTTGATCCC-CGAACTTTCCAAAAATTATA
1 TTTTGA-CCCTCGAACTTTCCAAAAATTATA
8703198 TTTTGA-CCTCCGAACTTTCCAAAAATTATA
1 TTTTGACCCT-CGAACTTTCCAAAAATTATA
* *
8703228 TTTTGACCCTCGAACTTTACAAAAATTATG
1 TTTTGACCCTCGAACTTTCCAAAAATTATA
* **
8703258 TTTTGACCC-CTAAACTTTCCTGAAATTATA
1 TTTTGACCCTC-GAACTTTCCAAAAATTATA
* * * *
8703288 TTTTGACTCTCGAACGTTCCAAAAATCACA
1 TTTTGACCCTCGAACTTTCCAAAAATTATA
* *
8703318 TTTTTG-CCCT-AAAATTTCCAAAAATTCCAT-
1 -TTTTGACCCTCGAACTTTCCAAAAATT--ATA
*
8703348 TTTTGA-CCTCGAACTTTCCAAAAATTACCA
1 TTTTGACCCTCGAACTTTCCAAAAATTA-TA
* *
8703378 TTTT-ACCCTCGAA-TGTCCAAAAATTACA
1 TTTTGACCCTCGAACTTTCCAAAAATTATA
* *
8703406 -TTTGACCCT-AAACTTTCCAATAATTACTA
1 TTTTGACCCTCGAACTTTCCAAAAATTA-TA
* * * *
8703435 TTTT-ACCCTAG-A-TGTCCATAAATTACA
1 TTTTGACCCTCGAACTTTCCAAAAATTATA
*
8703462 TTTTTGACCCT-AAACTTTCCAAAAATTACTA
1 -TTTTGACCCTCGAACTTTCCAAAAATTA-TA
*
8703493 TTTT-ATCCC-CG-AGTTTCCAAAAATTA
1 TTTTGA-CCCTCGAACTTTCCAAAAATTA
8703519 CCATTTTTTC
Statistics
Matches: 285, Mismatches: 40, Indels: 53
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.02
28 35 0.12
29 62 0.22
30 168 0.59
31 14 0.05
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTTGACCCTCGAACTTTCCAAAAATTATA
Found at i:8703337 original size:29 final size:29
Alignment explanation
Indices: 8703304--8703549 Score: 155
Period size: 29 Copynumber: 8.4 Consensus size: 29
8703294 CTCTCGAACG
*
8703304 TTCCAAAAATCACATTTTTGCCCTAAAAT
1 TTCCAAAAATTACATTTTTGCCCTAAAAT
* * * *
8703333 TTCCAAAAATTCCATTTTTGACCTCGAACT
1 TTCCAAAAATTACATTTTTGCCCT-AAAAT
* **
8703363 TTCCAAAAATTACCA-TTTTACCCTCGAAT
1 TTCCAAAAATTA-CATTTTTGCCCTAAAAT
* *
8703392 GTCCAAAAATTACA--TTTGACCCTAAACT
1 TTCCAAAAATTACATTTTTG-CCCTAAAAT
* * *
8703420 TTCCAATAATTAC-TATTTTACCCT-AGAT
1 TTCCAAAAATTACAT-TTTTGCCCTAAAAT
* * *
8703448 GTCCATAAATTACATTTTTGACCCTAAACT
1 TTCCAAAAATTACATTTTTG-CCCTAAAAT
** *
8703478 TTCCAAAAATTACTATTTTAT-CCC-CGAGT
1 TTCCAAAAATTAC-ATTTT-TGCCCTAAAAT
* ** *
8703507 TTCCAAAAATTACCATTTTTTCCCTCGAGT
1 TTCCAAAAATTA-CATTTTTGCCCTAAAAT
*
8703537 GTCCAAAAATTAC
1 TTCCAAAAATTAC
8703550 CGTTTTACCC
Statistics
Matches: 170, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.02
28 36 0.21
29 66 0.39
30 57 0.34
31 7 0.04
32 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTGCCCTAAAAT
Found at i:8703482 original size:58 final size:59
Alignment explanation
Indices: 8703157--8703584 Score: 272
Period size: 59 Copynumber: 7.3 Consensus size: 59
8703147 TCGAACTTTT
* ** * *
8703157 CAAAAATTATA-TTTTGATCCCCGAACTTTCCAAAAATTA-TATTTTGA-CCTCCGAACTTTC
1 CAAAAATTACATTTTTGA-CCCTAAACTTTCCAAAAATTACTATTTT-ACCCT-AGAA-TGTC
* * * * *
8703217 CAAAAATTATA-TTTTGACCCTCGAACTTTACAAAAATTA-TGTTTTGACCCCTA-AACTTTC
1 CAAAAATTACATTTTTGACCCT-AAACTTTCCAAAAATTACTATTTT-A-CCCTAGAA-TGTC
** * * * * * * * *
8703277 CTGAAATTATA-TTTTGACTCTCGAACGTTCCAAAAATCAC-ATTTTTGCCCTAAAATTTC
1 CAAAAATTACATTTTTGACCCT-AAACTTTCCAAAAATTACTA-TTTTACCCTAGAATGTC
* * * *
8703336 CAAAAATTCCATTTTTGA-CCTCGAACTTTCCAAAAATTACCATTTTACCCTCGAATGTC
1 CAAAAATTACATTTTTGACCCT-AAACTTTCCAAAAATTACTATTTTACCCTAGAATGTC
*
8703395 CAAAAATTACA--TTTGACCCTAAACTTTCCAATAATTACTATTTTACCCTAG-ATGTC
1 CAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACTATTTTACCCTAGAATGTC
* * * *
8703451 CATAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACTATTTTATCCC-CGAGTTTC
1 CAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACTATTTTA-CCCTAGAATGTC
* ** * * ** ** **
8703510 CAAAAATTACCATTTTT-TCCCTCGAGTGTCCAAAAATTACCGTTTTACCCCCGAACCTC
1 CAAAAATTA-CATTTTTGACCCTAAACTTTCCAAAAATTACTATTTTACCCTAGAATGTC
8703569 CAAAAATTACCATTTT
1 CAAAAATTA-CATTTT
8703585 ACCCTCAGGC
Statistics
Matches: 309, Mismatches: 44, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
56 15 0.05
57 32 0.10
58 40 0.13
59 119 0.39
60 96 0.31
61 4 0.01
62 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (59 bp):
CAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACTATTTTACCCTAGAATGTC
Found at i:8703542 original size:30 final size:30
Alignment explanation
Indices: 8703138--8703590 Score: 237
Period size: 30 Copynumber: 15.4 Consensus size: 30
8703128 AGAAATCAAG
* * *
8703138 TTTTGACCCTCGAACTTTTCAAAAATTA-TA
1 TTTTTACCCTCG-ACTTTCCAAAAATTACCA
* *
8703168 TTTTGATCCC-CGAACTTTCCAAAAATTA-TA
1 TTTTTA-CCCTCG-ACTTTCCAAAAATTACCA
* *
8703198 TTTTGA-CCTCCGAACTTTCCAAAAATTA-TA
1 TTTTTACCCT-CG-ACTTTCCAAAAATTACCA
* * **
8703228 TTTTGACCCTCGAACTTTACAAAAATTA-TG
1 TTTTTACCCTCG-ACTTTCCAAAAATTACCA
* ** ** *
8703258 TTTTGACCCCTAAACTTTCCTGAAATTA-TA
1 TTTTTA-CCCTCGACTTTCCAAAAATTACCA
* * * *
8703288 TTTTGACTCTCGAACGTTCCAAAAATCA-CA
1 TTTTTACCCTCG-ACTTTCCAAAAATTACCA
* ** *
8703318 TTTTTGCCCTAAAATTTCCAAAAATT-CCA
1 TTTTTACCCTCGACTTTCCAAAAATTACCA
8703347 TTTTTGA-CCTCGAACTTTCCAAAAATTACCA
1 TTTTT-ACCCTCG-ACTTTCCAAAAATTACCA
* *
8703378 -TTTTACCCTCGAATGTCCAAAAATTA-CA
1 TTTTTACCCTCGACTTTCCAAAAATTACCA
* ** * *
8703406 -TTTGACCCTAAACTTTCCAATAATTACTA
1 TTTTTACCCTCGACTTTCCAAAAATTACCA
* * *
8703435 -TTTTACCCTAGA-TGTCCATAAATTA-CA
1 TTTTTACCCTCGACTTTCCAAAAATTACCA
** *
8703462 TTTTTGACCCTAAACTTTCCAAAAATTACTA
1 TTTTT-ACCCTCGACTTTCCAAAAATTACCA
*
8703493 -TTTTATCCC-CGAGTTTCCAAAAATTACCA
1 TTTTTA-CCCTCGACTTTCCAAAAATTACCA
* * *
8703522 TTTTTTCCCTCGAGTGTCCAAAAATTACC-
1 TTTTTACCCTCGACTTTCCAAAAATTACCA
* * *
8703551 GTTTTACCCCCGAAC-CTCCAAAAATTACCA
1 TTTTTACCCTCG-ACTTTCCAAAAATTACCA
8703581 -TTTTACCCTC
1 TTTTTACCCTC
8703591 AGGCATCAAA
Statistics
Matches: 342, Mismatches: 60, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.00
28 38 0.11
29 107 0.31
30 182 0.53
31 14 0.04
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
TTTTTACCCTCGACTTTCCAAAAATTACCA
Found at i:8703555 original size:29 final size:29
Alignment explanation
Indices: 8703334--8703590 Score: 206
Period size: 29 Copynumber: 8.8 Consensus size: 29
8703324 CCCTAAAATT
*
8703334 TCCAAAAATT-CCATTTTTGA-CCTCGAACTT
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA-TG
8703364 TCCAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
8703393 TCCAAAAATTA-CATTTGACCCT-AAACTT
1 TCCAAAAATTACCATTTTACCCTCGAA-TG
* * *
8703421 TCCAATAATTACTATTTTACCCTAG-ATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * *
8703449 TCCATAAATTA-CATTTTTGACCCT-AAACTT
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA-TG
* * *
8703479 TCCAAAAATTACTATTTTATCCC-CGAGTT
1 TCCAAAAATTACCATTTTA-CCCTCGAATG
* *
8703508 TCCAAAAATTACCATTTTTTCCCTCGAGTG
1 TCCAAAAATTACCA-TTTTACCCTCGAATG
* * **
8703538 TCCAAAAATTACCGTTTTACCCCCGAACC
1 TCCAAAAATTACCATTTTACCCTCGAATG
8703567 TCCAAAAATTACCATTTTACCCTC
1 TCCAAAAATTACCATTTTACCCTC
8703591 AGGCATCAAA
Statistics
Matches: 184, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.02
28 35 0.19
29 80 0.43
30 62 0.34
31 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAATG
Found at i:8704832 original size:15 final size:15
Alignment explanation
Indices: 8704812--8704845 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8704802 GATTAAAGTC
*
8704812 AGATAACTAAAATGT
1 AGATAACTAAAATCT
8704827 AGATAACTAAAATCT
1 AGATAACTAAAATCT
8704842 AGAT
1 AGAT
8704846 TAAGCCTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (15 bp):
AGATAACTAAAATCT
Found at i:8706980 original size:18 final size:18
Alignment explanation
Indices: 8706957--8706992 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8706947 TTCATTTTAA
*
8706957 TATTTAATATAAATTTTT
1 TATTTAATAAAAATTTTT
*
8706975 TATTTATTAAAAATTTTT
1 TATTTAATAAAAATTTTT
8706993 ATATAGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTAATAAAAATTTTT
Found at i:8706993 original size:17 final size:18
Alignment explanation
Indices: 8706957--8706994 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8706947 TTCATTTTAA
*
8706957 TATTTAATATAAATTTTT
1 TATTTAATATAAAATTTT
*
8706975 TATTTATTA-AAAATTTT
1 TATTTAATATAAAATTTT
8706992 TAT
1 TAT
8706995 ATAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTAATATAAAATTTT
Found at i:8710543 original size:59 final size:59
Alignment explanation
Indices: 8710422--8710611 Score: 224
Period size: 59 Copynumber: 3.2 Consensus size: 59
8710412 TTTAATATAA
* * * * *
8710422 AATTTGGTACTTGAACTTGACA-TTTTTTTCTAATTTGGTACTTAAA-TTTTTTTTACCC
1 AATTTGGTACCTGAACTTGACACTTTTTCT-TAATTTGGTACCTAAACTTTTTTTGATCC
* *
8710480 AATTTGATACCTGAACTTGACACTTTTTCTTAATTTAGTACCTAAACTTTTTTTGATCC
1 AATTTGGTACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGATCC
* * * *
8710539 AATTTGGTATCTGAATTTGGCATCTTTTTC-TAATTTGGTACCTAAGCTTTTTTTTAGATCC
1 AATTTGGTACCTGAACTTGACA-CTTTTTCTTAATTTGGTACCTAAAC-TTTTTTT-GATCC
8710600 AATTTGGTACCT
1 AATTTGGTACCT
8710612 AAATTTATTA
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
58 34 0.30
59 49 0.43
60 14 0.12
61 16 0.14
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (59 bp):
AATTTGGTACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGATCC
Found at i:8710814 original size:31 final size:32
Alignment explanation
Indices: 8710759--8710831 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
8710749 AAAAAATTAG
8710759 GTACCAAATTAGGAAAAAAATGTCAAGTTT-A
1 GTACCAAATTAGGAAAAAAATGTCAAGTTTGA
* *
8710790 TGTACCAAATTATG-AAAAAGTGTCAAGTTTGA
1 -GTACCAAATTAGGAAAAAAATGTCAAGTTTGA
8710822 GTACCAAATT
1 GTACCAAATT
8710832 GGACCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (32 bp):
GTACCAAATTAGGAAAAAAATGTCAAGTTTGA
Found at i:8727354 original size:60 final size:59
Alignment explanation
Indices: 8727234--8727357 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
8727224 TTTATTTATT
* * *
8727234 TATTTCAATCCCTTTATTTTCTTTTTTTAATTTCCAGCATTGTCAATTTATTTTATTTA
1 TATTTCAATCCCTTTATTTTATTTTTTTAATTTCCAGCATTGTCAATTTATGTCATTTA
* ** *
8727293 TATTTCAATCCTTTTATTTTTATTTTTTTAATTTTTAGCACTT-T-TATTTCATGTCATTTA
1 TATTTCAATCCCTTTA-TTTTATTTTTTTAATTTCCAGCA-TTGTCAATTT-ATGTCATTTA
8727353 TATTT
1 TATTT
8727358 TTGCCCTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 19 0.35
60 34 0.62
61 2 0.04
ACGTcount: A:0.22, C:0.13, G:0.03, T:0.62
Consensus pattern (59 bp):
TATTTCAATCCCTTTATTTTATTTTTTTAATTTCCAGCATTGTCAATTTATGTCATTTA
Found at i:8727948 original size:25 final size:25
Alignment explanation
Indices: 8727920--8727978 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
8727910 CCTGTATTTT
8727920 TATTTTATTTTAATTTAAT-CCTTCA
1 TATTTTATTTTAATTT-ATGCCTTCA
* *
8727945 TATTCTATTTTTAATTTATGCCTTTA
1 TATTTTA-TTTTAATTTATGCCTTCA
8727971 -ATTTTATT
1 TATTTTATT
8727979 ACAGTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 2 0.07
25 13 0.45
26 14 0.48
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTTTATTTTAATTTATGCCTTCA
Found at i:8732651 original size:20 final size:20
Alignment explanation
Indices: 8732626--8732668 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8732616 GACATTTTTA
*
8732626 ATTTTTATTTTAATATTTCT
1 ATTTTTAATTTAATATTTCT
*
8732646 ATTTTTAATTTAATTTTTCT
1 ATTTTTAATTTAATATTTCT
8732666 ATT
1 ATT
8732669 CTAACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTAATTTAATATTTCT
Found at i:8734417 original size:42 final size:43
Alignment explanation
Indices: 8734253--8734435 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 43
8734243 CCAAGTCATA
*
8734253 AGTCTTCCTTTAAACAT-AATCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTTAAACATAAATCTCATGCTCATTCCGAGTCACG
* * * *
8734295 GGTCTTCCTTTAAACATAAATCTCATGCTCTTTTCGAGTTACG
1 AGTCTTCCTTTAAACATAAATCTCATGCTCATTCCGAGTCACG
* *
8734338 AATCTTCCTTTAAACATAAATCTCATGCTCTTTCCGAGTCACG
1 AGTCTTCCTTTAAACATAAATCTCATGCTCATTCCGAGTCACG
* * * **
8734381 AGTCTTCCTTTAAACAT-AATCTTATGCTCATCCCGAGACATA
1 AGTCTTCCTTTAAACATAAATCTCATGCTCATTCCGAGTCACG
8734423 AGTCTTCCATTTA
1 AGTCTTCC-TTTA
8734436 TACACCAAGT
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 43 0.35
43 80 0.65
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (43 bp):
AGTCTTCCTTTAAACATAAATCTCATGCTCATTCCGAGTCACG
Found at i:8738095 original size:74 final size:73
Alignment explanation
Indices: 8737944--8738100 Score: 190
Period size: 74 Copynumber: 2.1 Consensus size: 73
8737934 CCCACGGGTG
* ** *
8737944 TGTGCCAGACTGTGTGACACTGGGTGTATTTTTATTTTAATTTGAAATGGCACACGACCTGGACA
1 TGTGCCAGACTGTGTGACACTAGGTGTATTTTTATTTTAATTCAAAATGGCACACGACCTGAACA
* *
8738009 CATGGGCG
66 CACGGGCA
* * *
8738017 TGTGCCAGA-TCGTGTGACCACTATGTGTATTTTTATTTTAATTCAAAATGGTACACGGCCTGAA
1 TGTGCCAGACT-GTGTGA-CACTAGGTGTATTTTTATTTTAATTCAAAATGGCACACGACCTGAA
*
8738081 TACACGGGCA
64 CACACGGGCA
*
8738091 TGTGCTAGAC
1 TGTGCCAGAC
8738101 CGTATGAGAC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
72 1 0.01
73 15 0.21
74 54 0.77
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (73 bp):
TGTGCCAGACTGTGTGACACTAGGTGTATTTTTATTTTAATTCAAAATGGCACACGACCTGAACA
CACGGGCA
Found at i:8739971 original size:30 final size:30
Alignment explanation
Indices: 8739935--8739995 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8739925 TAGATTTTAG
8739935 GAGCTACACAAGCTGGATACACGACCATGT
1 GAGCTACACAAGCTGGATACACGACCATGT
** * *
8739965 GAGCTACACGGGTTGGGTACACGACCATGT
1 GAGCTACACAAGCTGGATACACGACCATGT
8739995 G
1 G
8739996 CCAGACCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.18
Consensus pattern (30 bp):
GAGCTACACAAGCTGGATACACGACCATGT
Found at i:8745250 original size:60 final size:59
Alignment explanation
Indices: 8745183--8745450 Score: 246
Period size: 60 Copynumber: 4.5 Consensus size: 59
8745173 AGGGAAAATA
* * *
8745183 GGGGTTAAAAATGAAATTTTGGAAATTTTGGGGGCCAAATTCA-AATTTTTGGAAAGTTT
1 GGGGTTAAAAAT-AAATTTTGGAAAGTTTGAGGGCCAAATTCATAATTTTTAGAAAGTTT
* *
8745242 GAGGGTTAAATTAA-AAATTTTAGAAAGTTTGAGGGTCAAATTCA-AATTTTTAGAAAGTTT
1 G-GGGTTAAA--AATAAATTTTGGAAAGTTTGAGGGCCAAATTCATAATTTTTAGAAAGTTT
* * *
8745302 GGGGTTAAAACATAATTTTTAGAAAGTTTAGAGGGCCAAA-ACATAATTTTTAG-AAGTTT
1 GGGGTTAAAA-ATAAATTTTGGAAAGTTT-GAGGGCCAAATTCATAATTTTTAGAAAGTTT
** * * *
8745361 GGGAGCCAAAATATAATTTTTGGAAAGTTT-AGGGGCCAAAAT-ATAATTTTTAGAAAATTT
1 GGG-GTTAAAA-ATAAATTTTGGAAAGTTTGA-GGGCCAAATTCATAATTTTTAGAAAGTTT
*
8745421 GGGGGTCAAAAATAGAATTTT-GAAGAGTTT
1 -GGGGTTAAAAATA-AATTTTGGAA-AGTTT
8745451 AAGGAATTTA
Statistics
Matches: 179, Mismatches: 16, Indels: 27
0.81 0.07 0.12
Matches are distributed among these distances:
57 1 0.01
58 2 0.01
59 60 0.34
60 111 0.62
61 3 0.02
62 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (59 bp):
GGGGTTAAAAATAAATTTTGGAAAGTTTGAGGGCCAAATTCATAATTTTTAGAAAGTTT
Found at i:8745431 original size:30 final size:30
Alignment explanation
Indices: 8745199--8745441 Score: 206
Period size: 30 Copynumber: 8.1 Consensus size: 30
8745189 AAAAATGAAA
* * *
8745199 TTTTGGAAATTTTGGGGGCCAAATTCA-AAT
1 TTTTAGAAAGTTTGGGGGCCAAAAT-ATAAT
* * ** * * *
8745229 TTTTGGAAAGTTTGAGGGTTAAATTAAAAA
1 TTTTAGAAAGTTTGGGGGCCAAAATATAAT
* * *
8745259 TTTTAGAAAGTTTGAGGGTCAAATTCA-AAT
1 TTTTAGAAAGTTTGGGGGCCAAAAT-ATAAT
** *
8745289 TTTTAGAAAGTTT-GGGGTTAAAACATAAT
1 TTTTAGAAAGTTTGGGGGCCAAAATATAAT
* *
8745318 TTTTAGAAAGTTTAGAGGGCCAAAACATAAT
1 TTTTAGAAAGTTT-GGGGGCCAAAATATAAT
*
8745349 TTTTAG-AAGTTTGGGAGCCAAAATATAAT
1 TTTTAGAAAGTTTGGGGGCCAAAATATAAT
* *
8745378 TTTTGGAAAGTTTAGGGGCCAAAATATAAT
1 TTTTAGAAAGTTTGGGGGCCAAAATATAAT
* * *
8745408 TTTTAGAAAATTTGGGGGTCAAAAATAGAAT
1 TTTTAGAAAGTTTGGGGG-CCAAAATATAAT
8745439 TTT
1 TTT
8745442 GAAGAGTTTA
Statistics
Matches: 180, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.01
29 43 0.24
30 103 0.57
31 33 0.18
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTTAGAAAGTTTGGGGGCCAAAATATAAT
Found at i:8747162 original size:12 final size:12
Alignment explanation
Indices: 8747145--8747171 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8747135 TTTTATCAAG
8747145 AATAATATTTTT
1 AATAATATTTTT
8747157 AATAATATTTTT
1 AATAATATTTTT
8747169 AAT
1 AAT
8747172 CCTATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:8750415 original size:6 final size:6
Alignment explanation
Indices: 8750400--8750476 Score: 70
Period size: 6 Copynumber: 13.3 Consensus size: 6
8750390 CAAGCCAGTC
* * * * *
8750400 TTTAAT TTTAAA TTT-AT TTTAAA TTAAAA TTT-AT TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
8750446 TTTAAA TTT-AT TTTAAG TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
8750477 GATTTATTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
5 12 0.21
6 45 0.79
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:8750432 original size:12 final size:12
Alignment explanation
Indices: 8750400--8750476 Score: 70
Period size: 11 Copynumber: 6.7 Consensus size: 12
8750390 CAAGCCAGTC
*
8750400 TTTAATTTTAAA
1 TTTAAATTTAAA
*
8750412 TTT-ATTTTAAA
1 TTTAAATTTAAA
* *
8750423 TTAAAATTT-AT
1 TTTAAATTTAAA
*
8750434 TTTAAGTTTAAA
1 TTTAAATTTAAA
*
8750446 TTTAAATTT-AT
1 TTTAAATTTAAA
*
8750457 TTTAAGTTTAAA
1 TTTAAATTTAAA
8750469 TTTAAATT
1 TTTAAATT
8750477 GATTTATTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
11 27 0.53
12 24 0.47
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:8750432 original size:23 final size:23
Alignment explanation
Indices: 8750417--8750481 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
8750407 TTAAATTTAT
*
8750417 TTTAAATTAAAATTTATTTTAAG
1 TTTAAATTTAAATTTATTTTAAG
8750440 TTTAAATTTAAATTTATTTTAAG
1 TTTAAATTTAAATTTATTTTAAG
*
8750463 TTTAAATTTAAATTGATTT
1 TTTAAATTTAAATTTATTT
8750482 ATTAAAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTTATTTTAAG
Found at i:8750472 original size:17 final size:17
Alignment explanation
Indices: 8750400--8750449 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
8750390 CAAGCCAGTC
*
8750400 TTTAATTTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
8750417 TTTAAATTAAAATTTAT
1 TTTAAATTTAAATTTAT
*
8750434 TTTAAGTTTAAATTTA
1 TTTAAATTTAAATTTA
8750450 AATTTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:8751808 original size:30 final size:30
Alignment explanation
Indices: 8751774--8751857 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
8751764 AAGGTGCCTG
* *
8751774 AACTTTCCAAAAATCACATTTTGCCCCCCA
1 AACTTTCCAAAAATCATATTTTGACCCCCA
* * * **
8751804 AACTTTCAAAAAATTATATTTTAACCCTTA
1 AACTTTCCAAAAATCATATTTTGACCCCCA
*
8751834 AATTTTCCAAAAATCATATTTTGA
1 AACTTTCCAAAAATCATATTTTGA
8751858 TCCTCGAACT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCCAAAAATCATATTTTGACCCCCA
Found at i:8751877 original size:30 final size:29
Alignment explanation
Indices: 8751841--8752182 Score: 217
Period size: 29 Copynumber: 11.7 Consensus size: 29
8751831 TTAAATTTTC
* *
8751841 CAAAAATCATATTTTGATCCTCGAACTTCT
1 CAAAAATCACATTTT-ACCCTCGAACTTCT
* * ** *
8751871 CGAAAATGACATTTTTGCCTCTAACTTCT
1 CAAAAATCACATTTTACCCTCGAACTTCT
*
8751900 -AAAAATTACCATTTTACCCT-GAACTTC-
1 CAAAAATCA-CATTTTACCCTCGAACTTCT
8751927 CAAAAAAT-ACCATTTTACCCTCGAACTTCT
1 C-AAAAATCA-CATTTTACCCTCGAACTTCT
* *
8751957 CAAAAATCACATTTTTGCACTCGAACTTC-
1 CAAAAATCACA-TTTTACCCTCGAACTTCT
* *
8751986 CAAAAATGACCATTTTACTCTCGAACTTCT
1 CAAAAATCA-CATTTTACCCTCGAACTTCT
* *
8752016 CGAAAATCACATTTTTACCCTTGAACTTC-
1 CAAAAATCACA-TTTTACCCTCGAACTTCT
* * *
8752045 CAAAAATTACCATTTTACCCCCTAAACTT-T
1 CAAAAATCA-CATTTTACCCTC-GAACTTCT
8752075 CAAAAAT-ATCATTTTGACCC-C-AAGCTT-T
1 CAAAAATCA-CATTTT-ACCCTCGAA-CTTCT
* *
8752103 CAAAAAATTACCGA-TTTAACCTCGAACTTCT
1 C-AAAAATCA-C-ATTTTACCCTCGAACTTCT
* * *
8752134 -AAAAATTACCATTTTCACCCTCAAACCT-T
1 CAAAAATCA-CATTTT-ACCCTCGAACTTCT
*
8752163 CAAAAATTACCATTTTACCC
1 CAAAAATCA-CATTTTACCC
8752183 CCGGGCATCC
Statistics
Matches: 257, Mismatches: 31, Indels: 49
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.01
28 31 0.12
29 116 0.45
30 104 0.40
31 4 0.02
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (29 bp):
CAAAAATCACATTTTACCCTCGAACTTCT
Found at i:8751898 original size:29 final size:30
Alignment explanation
Indices: 8751841--8752178 Score: 196
Period size: 30 Copynumber: 11.5 Consensus size: 30
8751831 TTAAATTTTC
* *
8751841 CAAAAATCA-TATTTTGATCCTCGAACTTCT
1 CAAAAATCACCATTTTTA-CCTCGAACTTCT
* * * *
8751871 CGAAAATGA-CATTTTTGCCTCTAACTTCT
1 CAAAAATCACCATTTTTACCTCGAACTTCT
*
8751900 -AAAAATTACCA-TTTTACC-CTGAACTTC-
1 CAAAAATCACCATTTTTACCTC-GAACTTCT
8751927 CAAAAAAT-ACCA-TTTTACCCTCGAACTTCT
1 C-AAAAATCACCATTTTTA-CCTCGAACTTCT
*
8751957 CAAAAATCA-CATTTTTGCACTCGAACTTC-
1 CAAAAATCACCATTTTTAC-CTCGAACTTCT
*
8751986 CAAAAATGACCA-TTTTACTCTCGAACTTCT
1 CAAAAATCACCATTTTTAC-CTCGAACTTCT
* *
8752016 CGAAAATCA-CATTTTTACCCTTGAACTTC-
1 CAAAAATCACCATTTTTA-CCTCGAACTTCT
* * *
8752045 CAAAAATTACCA-TTTTACCCCCTAAACTT-T
1 CAAAAATCACCATTTTTA-CCTC-GAACTTCT
* * *
8752075 CAAAAAT-ATCATTTTGACC-CCAAGCTT-T
1 CAAAAATCACCATTTTTACCTCGAA-CTTCT
* *
8752103 CAAAAAATTACCGA-TTTAACCTCGAACTTCT
1 C-AAAAATCACC-ATTTTTACCTCGAACTTCT
* * * *
8752134 -AAAAATTACCATTTTCACCCTCAAACCT-T
1 CAAAAATCACCATTTTTA-CCTCGAACTTCT
*
8752163 CAAAAATTACCATTTT
1 CAAAAATCACCATTTT
8752179 ACCCCCGGGC
Statistics
Matches: 250, Mismatches: 31, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.01
28 34 0.14
29 103 0.41
30 104 0.42
31 6 0.02
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (30 bp):
CAAAAATCACCATTTTTACCTCGAACTTCT
Found at i:8751999 original size:59 final size:60
Alignment explanation
Indices: 8751841--8752182 Score: 307
Period size: 59 Copynumber: 5.8 Consensus size: 60
8751831 TTAAATTTTC
* * * * * ** *
8751841 CAAAAATCA-TATTTTGATCCTCGAACTTCTCGAAAATGA-CATTTTTGCCTCTAACTTCT
1 CAAAAATCACCATTTTTACCCTCGAACTTC-CAAAAATTACCATTTTACCCTCGAACTTCT
* *
8751900 -AAAAATTACCA-TTTTACCCT-GAACTTCCAAAAAATACCATTTTACCCTCGAACTTCT
1 CAAAAATCACCATTTTTACCCTCGAACTTCCAAAAATTACCATTTTACCCTCGAACTTCT
* * * *
8751957 CAAAAATCA-CATTTTTGCACTCGAACTTCCAAAAATGACCATTTTACTCTCGAACTTCT
1 CAAAAATCACCATTTTTACCCTCGAACTTCCAAAAATTACCATTTTACCCTCGAACTTCT
* * * *
8752016 CGAAAATCA-CATTTTTACCCTTGAACTTCCAAAAATTACCATTTTACCCCCTAAACTT-T
1 CAAAAATCACCATTTTTACCCTCGAACTTCCAAAAATTACCATTTTACCCTC-GAACTTCT
* * * *
8752075 CAAAAAT-ATCATTTTGACCC-C-AAGCTTTCAAAAAATTACCGA-TTTAACCTCGAACTTCT
1 CAAAAATCACCATTTTTACCCTCGAA-C-TTCCAAAAATTACC-ATTTTACCCTCGAACTTCT
* * *
8752134 -AAAAATTACCATTTTCACCCTCAAACCTT-CAAAAATTACCATTTTACCC
1 CAAAAATCACCATTTTTACCCTCGAA-CTTCCAAAAATTACCATTTTACCC
8752183 CCGGGCATCC
Statistics
Matches: 232, Mismatches: 36, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
56 6 0.03
57 28 0.12
58 42 0.18
59 144 0.62
60 9 0.04
61 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (60 bp):
CAAAAATCACCATTTTTACCCTCGAACTTCCAAAAATTACCATTTTACCCTCGAACTTCT
Found at i:8763428 original size:46 final size:45
Alignment explanation
Indices: 8763362--8763457 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
8763352 ACTTCGCCTA
* *
8763362 AAAAAAAGATCGAGATGAAAACTCACAAAAGGATGTCTCGATGCTT
1 AAAAAAAGATCGAGATGAAAACCCACAAAAGGACGTCTCGATGC-T
* * * *
8763408 AAAAAAGGATTGAGATGAAAACCCACAAAGGGGCGTCTCGATGCT
1 AAAAAAAGATCGAGATGAAAACCCACAAAAGGACGTCTCGATGCT
8763453 AAAAA
1 AAAAA
8763458 GAAAGACGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (45 bp):
AAAAAAAGATCGAGATGAAAACCCACAAAAGGACGTCTCGATGCT
Done.